Coral Reef Diagnostics

Kenya

NOAA Coral Reef Watch

Regional summary of 21 dive sites. Figures are averages across the sites that report them (n = sites with a value); each site's own page has its individual values.

⬇ Download this region as a report card
05
Coral Reef Diagnostics
Photo: Anderson Mayfield/Coral Reef Diagnostics — Kenya - Brain Coral (Mombasa)
Country
Kenya
Sites
21
each linked below
Hard coral cover (regional mean)
30% ± 11% (std. dev.)
n = 20 of 21 sites. range 13–55%
Water temp. during surveys (regional mean)
32.0°C
n = 20 of 21 sites; surveyed Mar 2024–Apr 2024
Coral Health Index (regional mean)
1.50 / 5
n = 5 of 21 sites; scale of zero to five, higher is healthier
Coral bleached (regional mean)
77%
Most recent water temperature record
26 Oct 2026 · Kenya
Most recent heat stress record
26 Oct 2026 · No heat stress
Mean annual max degree heating weeks (DHW), last 5 years
2021–2025 · regional mean of 21 sites, 2 stations
Highest annual heat stress
in 2024 · Tanzania
Severe heat-stress years
1985–2025 · 3 in the last 10 years
Heat-stress figures: NOAA Coral Reef Watch 5-km virtual stations: Kenya; Tanzania. Each pill links its source record and carries the values behind it.
Regional summary

Kenya's shallow fringing reef flats, terraces, bommie fields, and restoration nurseries were surveyed in March-April 2024, during the Western Indian Ocean mass bleaching. Bleached tissue ranged from 45.4% to 95.4% of hard coral, and no coral growth form was reliably spared.

Heat stress

0481216Week of 2023-04-02: DHW 0.5°C-weeks (below the bleaching alert threshold); SST 29.77°CWeek of 2023-04-09: DHW 1.4°C-weeks (below the bleaching alert threshold); SST 29.85°CWeek of 2023-04-16: DHW 2.2°C-weeks (below the bleaching alert threshold); SST 29.88°CWeek of 2023-04-23: DHW 2.2°C-weeks (below the bleaching alert threshold); SST 29.28°CWeek of 2023-04-30: DHW 2.2°C-weeks (below the bleaching alert threshold); SST 28.77°CWeek of 2023-05-07: DHW 2.2°C-weeks (below the bleaching alert threshold); SST 28.46°CWeek of 2023-05-14: DHW 2.2°C-weeks (below the bleaching alert threshold); SST 28.52°CWeek of 2023-05-21: DHW 2.2°C-weeks (below the bleaching alert threshold); SST 28.60°CWeek of 2023-05-28: DHW 2.2°C-weeks (below the bleaching alert threshold); SST 28.20°CWeek of 2023-06-04: DHW 2.2°C-weeks (below the bleaching alert threshold); SST 27.90°CWeek of 2023-06-11: DHW 2.2°C-weeks (below the bleaching alert threshold); SST 27.48°CWeek of 2023-06-18: DHW 2.2°C-weeks (below the bleaching alert threshold); SST 27.19°CWeek of 2023-06-25: DHW 2.2°C-weeks (below the bleaching alert threshold); SST 26.68°CWeek of 2023-07-02: DHW 1.6°C-weeks (below the bleaching alert threshold); SST 26.52°CWeek of 2023-07-09: DHW 0.7°C-weeks (below the bleaching alert threshold); SST 26.47°CWeek of 2024-02-25: DHW 1.2°C-weeks (below the bleaching alert threshold); SST 30.00°CWeek of 2024-03-03: DHW 3.1°C-weeks (below the bleaching alert threshold); SST 30.51°CWeek of 2024-03-10: DHW 5.1°C-weeks (Alert Level 1: significant bleaching likely); SST 30.69°CWeek of 2024-03-17: DHW 7.2°C-weeks (Alert Level 1: significant bleaching likely); SST 30.72°CWeek of 2024-03-24: DHW 9.2°C-weeks (Alert Level 2+: severe bleaching and significant mortality likely); SST 30.77°CWeek of 2024-03-31: DHW 11.0°C-weeks (Alert Level 2+: severe bleaching and significant mortality likely); SST 30.55°CWeek of 2024-04-07: DHW 12.6°C-weeks (Alert Level 2+: severe bleaching and significant mortality likely); SST 30.42°CWeek of 2024-04-14: DHW 13.5°C-weeks (Alert Level 2+: severe bleaching and significant mortality likely); SST 29.83°CWeek of 2024-04-21: DHW 13.5°C-weeks (Alert Level 2+: severe bleaching and significant mortality likely); SST 29.38°CWeek of 2024-04-28: DHW 13.5°C-weeks (Alert Level 2+: severe bleaching and significant mortality likely); SST 29.06°CWeek of 2024-05-05: DHW 13.5°C-weeks (Alert Level 2+: severe bleaching and significant mortality likely); SST 28.54°CWeek of 2024-05-12: DHW 13.5°C-weeks (Alert Level 2+: severe bleaching and significant mortality likely); SST 28.74°CWeek of 2024-05-19: DHW 13.5°C-weeks (Alert Level 2+: severe bleaching and significant mortality likely); SST 28.44°CWeek of 2024-05-26: DHW 12.0°C-weeks (Alert Level 2+: severe bleaching and significant mortality likely); SST 28.02°CWeek of 2024-06-02: DHW 10.1°C-weeks (Alert Level 2+: severe bleaching and significant mortality likely); SST 28.10°CWeek of 2024-06-09: DHW 8.1°C-weeks (Alert Level 2+: severe bleaching and significant mortality likely); SST 27.88°CWeek of 2024-06-16: DHW 6.0°C-weeks (Alert Level 1: significant bleaching likely); SST 27.56°CWeek of 2024-06-23: DHW 4.1°C-weeks (Alert Level 1: significant bleaching likely); SST 27.28°CWeek of 2024-06-30: DHW 2.3°C-weeks (below the bleaching alert threshold); SST 26.95°CWeek of 2024-07-07: DHW 0.7°C-weeks (below the bleaching alert threshold); SST 26.94°CWeek of 2025-03-16: DHW 0.8°C-weeks (below the bleaching alert threshold); SST 29.69°CWeek of 2025-03-23: DHW 2.2°C-weeks (below the bleaching alert threshold); SST 30.10°CWeek of 2025-03-30: DHW 3.6°C-weeks (below the bleaching alert threshold); SST 30.08°CWeek of 2025-04-06: DHW 4.8°C-weeks (Alert Level 1: significant bleaching likely); SST 30.01°CWeek of 2025-04-13: DHW 6.0°C-weeks (Alert Level 1: significant bleaching likely); SST 30.00°CWeek of 2025-04-20: DHW 6.1°C-weeks (Alert Level 1: significant bleaching likely); SST 29.70°CWeek of 2025-04-27: DHW 6.1°C-weeks (Alert Level 1: significant bleaching likely); SST 29.59°CWeek of 2025-05-04: DHW 6.1°C-weeks (Alert Level 1: significant bleaching likely); SST 28.91°CWeek of 2025-05-11: DHW 6.1°C-weeks (Alert Level 1: significant bleaching likely); SST 28.13°CWeek of 2025-05-18: DHW 6.1°C-weeks (Alert Level 1: significant bleaching likely); SST 28.18°CWeek of 2025-05-25: DHW 6.1°C-weeks (Alert Level 1: significant bleaching likely); SST 27.98°CWeek of 2025-06-01: DHW 6.1°C-weeks (Alert Level 1: significant bleaching likely); SST 27.92°CWeek of 2025-06-08: DHW 6.1°C-weeks (Alert Level 1: significant bleaching likely); SST 27.70°CWeek of 2025-06-15: DHW 5.1°C-weeks (Alert Level 1: significant bleaching likely); SST 27.23°CWeek of 2025-06-22: DHW 3.7°C-weeks (below the bleaching alert threshold); SST 27.15°CWeek of 2025-06-29: DHW 2.4°C-weeks (below the bleaching alert threshold); SST 26.81°CWeek of 2025-07-06: DHW 1.2°C-weeks (below the bleaching alert threshold); SST 26.45°CWeek of 2026-03-01: DHW 0.1°C-weeks (below the bleaching alert threshold); SST 29.29°CWeek of 2026-03-08: DHW 0.1°C-weeks (below the bleaching alert threshold); SST 29.24°CWeek of 2026-03-15: DHW 0.1°C-weeks (below the bleaching alert threshold); SST 29.21°CWeek of 2026-03-22: DHW 0.1°C-weeks (below the bleaching alert threshold); SST 29.60°CWeek of 2026-03-29: DHW 1.3°C-weeks (below the bleaching alert threshold); SST 30.01°CWeek of 2026-04-05: DHW 2.6°C-weeks (below the bleaching alert threshold); SST 30.10°CWeek of 2026-04-12: DHW 3.8°C-weeks (below the bleaching alert threshold); SST 29.93°CWeek of 2026-04-19: DHW 4.3°C-weeks (Alert Level 1: significant bleaching likely); SST 29.61°CWeek of 2026-04-26: DHW 4.3°C-weeks (Alert Level 1: significant bleaching likely); SST 29.05°CWeek of 2026-05-03: DHW 4.3°C-weeks (Alert Level 1: significant bleaching likely); SST 29.03°CWeek of 2026-05-10: DHW 4.3°C-weeks (Alert Level 1: significant bleaching likely); SST 28.81°CWeek of 2026-05-17: DHW 4.3°C-weeks (Alert Level 1: significant bleaching likely); SST 28.50°CWeek of 2026-05-24: DHW 4.3°C-weeks (Alert Level 1: significant bleaching likely); SST 28.30°CWeek of 2026-05-31: DHW 4.1°C-weeks (Alert Level 1: significant bleaching likely); SST 27.77°CWeek of 2026-06-07: DHW 4.1°C-weeks (Alert Level 1: significant bleaching likely); SST 27.83°CWeek of 2026-06-14: DHW 4.1°C-weeks (Alert Level 1: significant bleaching likely); SST 27.58°CWeek of 2026-06-21: DHW 4.0°C-weeks (below the bleaching alert threshold); SST 27.11°CWeek of 2026-06-28: DHW 2.7°C-weeks (below the bleaching alert threshold); SST 26.72°CWeek of 2026-07-05: DHW 1.4°C-weeks (below the bleaching alert threshold); SST 26.61°CWeek of 2026-07-12: DHW 0.3°C-weeks (below the bleaching alert threshold); SST 26.43°C2426283032Bleaching threshold 29.8°C2023202420252026SST (°C)DHW (°C-weeks)
sea surface temperature (SST) (left axis)DHW under 2DHW 2–3DHW 3–5DHW 5–8DHW 8–10DHW over 10 (🔥 above 12)
Daily SST (line) and weekly maximum Degree Heating Weeks (bars), Jan 2023–Oct 2026, NOAA Coral Reef Watch 5-km Kenya virtual station. Dashed line: bleaching threshold (maximum monthly mean 28.8°C + 1°C). DHW ≥ 4: bleaching likely; ≥ 8: severe bleaching and mortality likely. A bar is drawn only where DHW exceeds zero, so a stretch with no bar is accumulated heat stress of zero, not missing data — the SST line runs the full period.

Long-term record: 4 years from 1985 through 2025 reached 8 or more °C-weeks at NOAA’s Kenya, Tanzania stations. Download the annual DHW data (CSV).

21 sites in this region — click a marker to open that site.

Read this summary in:

Regional setting

Kenya's reefs are mostly fringing reefs, the predominant type along mainland East Africa (Spalding et al. 2001). South of Malindi, a narrow coastal plain is backed by raised Pleistocene reef platforms standing above today's intertidal platform, and the continental shelf extends only about 5 km offshore; north of Malindi it widens to about 60 km. Fringing reefs are best developed in the south. Farther north, loose sediment and fresh water from the Athi-Galana-Sabaki and Tana rivers hold back reef growth, although fringing reefs occur around the Lamu islands and along a chain of about 50 calcareous barrier islands near Kiunga. Diversity also tends to be higher in the south, and Kenya's recorded coral fauna runs to about 55 genera and as many as 200 species. Before 1998, live coral typically covered about 30% of hard substrate, interspersed with seagrass and algal beds. In 1998, 50–90% of corals appeared to bleach and many died, and soft corals fared even worse. Kenya's first marine parks, at Malindi and Watamu, date from 1968, followed by Kisite and Mpunguti in 1978, Mombasa in 1986, and the Diani reserve in 1993, and protection has brought more fish, greater diversity, and higher live coral cover. Spalding et al. (2001) estimate about 630 km² of coral reef for Kenya, and Souter et al. (2021) put the whole Western Indian Ocean at about 15,180 km², nearly 6% of the world total.

Recovery in East Africa after 1998 was significant but patchy, and better on well-managed reefs, according to Wilkinson's (2006) summary of the 2004 status report. It named the growing coastal population, with land-based pollution and rising fishing pressure, as the largest threat, and listed Kenya with Tanzania and the Great Barrier Reef as the places with the highest recent densities of crown-of-thorns starfish. Souter et al. (2021) identify 1998 and 2016 as the two region-wide bleaching events in the Western Indian Ocean, with smaller episodes in 2005, 2007, and 2010 that interacted with fishing and local stressors. After the 2016 event, citizen-science surveys found that one site in five had lost more than half of its corals. Other published studies cited in that report point to 1998 mortality of 45–70%, after which cover never climbed back to its earlier level.

Overview

The 21 Kenya sites come from Anderson's survey of 11 March to 3 April 2024, with local partners (Mombasa Marine Park, Tropical Diving Kenya, Whale Shark Adventures, REEFolution, 3 Degrees South, A Rocha, Extra Divers, and PMCC / Northern Rangelands Trust), during the Western Indian Ocean mass bleaching event. They run from Mombasa Marine Park south through Diani and the Shimoni-Wasini channel to Kisite-Mpunguti, and north through Kilifi and Watamu to Pate Island in the Lamu archipelago. All are shallow (no dive depths survive for this survey): fringing reef flats, hardground terraces, bommie fields, and four restoration sites (the REEFolution nursery at Shimoni and three nurseries on Pate). The reef-building community changes along the coast. Foliose and laminar plates of Turbinaria, Montipora, and Echinopora type dominate at Sandy Patch and Diani, massive Porites bommies at the Mombasa Marine Park snorkel site, tabulate Acropora at Dolphin Point, and knobby Galaxea carpets cover Coral Garden and Kisite site 4.

Published hard coral cover at the 20 scored sites ranged from 13% at Chipopo, a restoration site, to 55% at Coral Garden in Kisite, which is wall-to-wall coral in clear blue water. The share of hard coral tissue bleached ranged from 45% at Sandy Patch and 47% at Brain Coral, both in Mombasa, to 95% at North Canyon and Ocean Trust Nursery. Seven of the nine Kilifi, Watamu, and Pate sites exceeded 80%. Five sites carry a Coral Health Index (scale of zero to five; higher is healthier): Bofa and Round Reef (2.25 each), and Chipopo, Pilot Nursery, and Ocean Trust Nursery (1.00 each).

No single growth form was consistently spared. At Outer Kisite the branching Acropora thickets took the damage while massive Porites hillsides and plate terraces held pigment. At Bofa, Round Reef, and Uyombo the massive and brain corals were among the most completely bleached, and Turbinaria plates were the survivors at Bofa, Kilifi Bay, and Lower Mpunguti site 1. The Galaxea carpet held its color at Coral Garden but went white as a snowfield at Kisite site 4. Pink, mauve, violet, and chartreuse stress coloration recurred at Uyombo, North Canyon, and Kilifi Bay. Restoration stock was mixed, with pigmented and white fragments side by side on the same structures. Fleshy macroalgae covered much of the reef at Lower Mpunguti site 1, the Mombasa Marine Park snorkel site, and around the REEFolution nursery.

Crown-of-thorns predation was concentrated at Bofa, where at least nine individuals were found on already-bleached coral, with one or two at Kisite site 4 and one at Kilifi Bay. Turtles, a trumpetfish aggregation, and a Spanish dancer on the Shimoni night dive stand out among the fauna.

Highlights

Notable observations (21)

Coral cover over time (pooled)

One point per year: the mean of every hard coral cover value available for this region that year — Anderson’s own dives and every independent survey station within 5 km of them. The vertical bar is the full range behind that mean. Different programs use different methods at different stations, so this is a regional summary, not a single comparable series. These means leave out 80 values measured with MERMAID bleaching-protocol quadrats, a different method (WCS Kenya / WCS Tanzania via MERMAID; WCS Kenya via MERMAID; submitted to MERMAID by Kosgei J, Musembi P.). Years resting on fewer than three values are drawn as smaller points (1994, 2003, 2021, 2022). Non-CRD points are from WCS Kenya, WCS Tanzania, REEFolution Foundation, McClanahan et al. (1996), and Mangubhai et al. (2007). Marker shape: Anderson’s own dives, other organizations’ surveys, a mix of both, that year.
0%17%34%51%68%1998 bleaching1994200920241994: mean 27% of 1 value2003: mean 22% of 1 value2017: mean 24% of 6 values (range 2.4–39%)2018: mean 38% of 10 values (range 8.0–53%)2019: mean 34% of 8 values (range 0.0–59%)2020: mean 24% of 3 values (range 18–29%)2021: mean 66% of 1 value2022: mean 39% of 2 values (range 23–56%)2023: mean 19% of 3 values (range 4.9–29%)2024: mean 30% of 21 values (range 13–55%)
Sites in this region (21)

% coral cover by method

Pooled across 20 dive sites

MethodMean % coral coverStd. dev. between dive sitesn dive sitesNote
Manual point count (author)30%±1120—
Manual, same frames22%±156—
CoralNet automated point classifier30%±9.72020 of these dive sites are the SAME MEASUREMENT as the reference and are excluded from the ranking
CoralSCOP (SAM-based mask-sum), unedited photos20%±5.3202 of these 20 values rest on 10–19 photographs (*)
Claude (Anthropic), blind point count21%±136—
In-house DINOv3 point classifier38%±8.320—
CoralNet, 50-frame blind subset20%±178—
In-house DINOv3, 50-frame blind subset12%±6.38—
CoralSCOP, 50-frame blind subset26%±128—

The mean is an UNWEIGHTED mean of the dive site values — each dive site counts once, whatever its photo count — which is the convention of the published tables and of every other figure on this page. Each value is the one printed on that dive site's own page; a page that prints no value for a method (fewer than 10 photographs) is left out of that method's mean.

Closest to the reference

Over the dive sites where an independent reference exists, Claude (Anthropic), blind point count sits closest to it — a mean absolute deviation of 1.1 pp across 4 dive sites, then In-house DINOv3 point classifier 10.3 pp (n=18), CoralSCOP (SAM-based mask-sum), unedited photos 12.2 pp (n=16). Not in this ranking: Coralscapes v1 and Coralscapes v2, which measure coral area rather than points; CoralNet, which is the same measurement as the reference. A mean absolute deviation is not an accuracy score: a model with a consistent offset is correctable, while one with the same deviation scattered in both directions is not.

By dive site

Dive siteManual point countManual, same framesCoralNetCoralSCOP (unedited)ClaudeDINOv3Coralscapes v1Coralscapes v2
Sandy Point29%
n=117
too few photos
n=8
29%⚠
n=117
26%
n=110
too few photos
n=8
40%
n=117
38%
n=117
37%
n=117
Brain Coral27%
n=136
—27%⚠
n=136
24%
n=125
—43%
n=137
38%
n=137
39%
n=137
MMP snorkel site40%
n=54
—40%⚠
n=54
23%
n=41
—54%
n=54
33%
n=54
36%
n=54
Diani Beach35%
n=50
—34%⚠
n=50
22%
n=35
—39%
n=53
30%
n=53
30%
n=53
Reefolution nursery40%
n=258
—40%⚠
n=258
16%
n=141
—44%
n=264
32%
n=264
33%
n=264
Coral Garden55%
n=178
51%
n=27
46%⚠
n=178
21%
n=150
44%
n=27
46%
n=179
44%
n=179
44%
n=179
Outer Kisite37%
n=85
—36%⚠
n=83
17%
n=68
—43%
n=83
45%
n=83
44%
n=83
Dolphin Point40%
n=108
—40%⚠
n=108
27%
n=96
—42%
n=108
35%
n=108
34%
n=108
Kisite National Park-site 446%
n=71
—46%⚠
n=71
18%
n=50
—36%
n=71
33%
n=71
34%
n=71
Lower Mpunguti-site 118%
n=36
too few photos
n=1
17%⚠
n=36
21%
n=27
too few photos
n=1
37%
n=36
17%
n=36
16%
n=36
Lower Mpunguti-site 234%
n=27
—34%⚠
n=27
17%
n=27
—43%
n=27
19%
n=27
17%
n=27
Kilifi Bay25%
n=134
—26%⚠
n=134
19%
n=123
—31%
n=136
22%
n=136
21%
n=136
Bofa32%
n=97
—34%⚠
n=97
27%
n=87
—48%
n=104
29%
n=104
30%
n=104
Round Reef (RRQ quadrats)18%
n=175
16%
n=175
14%⚠
n=175
16%*
n=16
13%
n=175
28%
n=175
12%
n=175
14%
n=175
Uyombo (UYQ quadrats)25%
n=375
23%
n=374
25%⚠
n=375
29%
n=24
23%
n=374
37%
n=374
19%
n=374
22%
n=374
North Canyon22%
n=83
—22%⚠
n=83
19%
n=79
—20%
n=82
15%
n=82
15%
n=82
Trumpet Area21%
n=193
—21%⚠
n=193
21%
n=176
—35%
n=193
21%
n=193
22%
n=193
Chipopo13%
n=40
8.6%
n=40
17%⚠
n=40
12%
n=35
7.3%
n=40
22%
n=40
6.5%
n=40
7.3%
n=40
Pilot Nursery14%
n=21
12%
n=21
19%⚠
n=21
11%*
n=16
14%
n=21
33%
n=21
16%
n=21
18%
n=21
Ocean Trust Nursery29%
n=62
23%
n=57
28%⚠
n=62
11%
n=41
23%
n=57
40%
n=63
20%
n=63
18%
n=63

n under each value is the number of photographs that method scored at that dive site. ⚠ marks a cell that is not an independent check. * marks a value resting on only 10–19 photographs, which is less certain.

Reference: the author's published point count on the photographs (Mayfield 2025, Environments 12:276, Appendix A). Denominator: coral points / (30 − water − fish points); unknown points stay in the denominator (Mayfield 2025 convention). Source: published verbatim (Mayfield 2025, Environments 12:276, Appendix A) ⚠ The published manual value and the computer-vision (CV) values do not all rest on one photo set: the manual count covers the site's full photo set (21–375 frames); CoralNet, DINOv3, and the two Coralscapes models ran on nearly all of those frames (21–375 per site); CoralSCOP ran on 16–176 frames per site; and Claude's blind count ran on 1–374 frames at the 8 sites it covers. The like-for-like row is the manual count recomputed on the frames Claude scored, not the published value. ⚠ Claude and the CoralNet and DINOv3 50-frame rows use all 30 points as the denominator, the DINOv3 and CoralNet full-run rows use 30 minus water and fish points, CoralSCOP is an area index with no point denominator, and the published manual value follows the Mayfield (2025) convention (water and fish points excluded); on the 50-frame subset, the all-30 basis understates cover by ~3.0 pp. The 50-frame subset is 6.3 pp poorer in cover than the survey average, so the 50-frame CV values are biased by frame selection as well as by the denominator. Round Reef and Uyombo roll up 15 and 16 quadrat codes respectively.

Nearby external survey stations

245 independent survey records within 5 km of a site in this region (each record counted once; 118 lines, and a line that pools several records says how many).

Show all 245 records

All images from Coral Reef Diagnostics. Data are from Coral Reef Diagnostics, WCS Kenya, WCS Tanzania, REEFolution Foundation, McClanahan et al. (1996), and Mangubhai et al. (2007).

© Coral Reef Diagnostics.

References