This happened on Bryan Beach, near the mouth of the Brazos River.
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The pedestrian beach is mostly cleaned up, but officials recommend waiting a few days to make sure conditions are good.
The Texas Parks and Wildlife Kills and Spills Team investigated the fish kills and determined it was caused by a low dissolved oxygen event.
"Fish kills like this are common in the summer when temperatures increase. If there isn't enough oxygen in the water, fish can't 'breathe.' Low dissolved oxygen in many cases is a natural occurrence," the department said in a statement.
There was no evidence of a chemical release of any kind in the water, officials said.
Tens of thousands of dead fish could be seen washing ashore in Freeport in a video sent to ABC13 on Friday. On Saturday, fish were seen washing up, causing officials to recommend to beachgoers to avoid the area and to not enter the water until the area is cleared.
RELATED: 'Fish kill' washes dead wildlife ashore in Texas coastal communities
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Officials said the species most impacted was Gulf menhaden.
SEE HERE: Thousands of dead fish floating leaves a stench in Kingwood neighborhood
Fish kill in Kingwood
According to experts, some fish may also lie at the bottom or the edge of the water.
If you see a fish or wildlife kill or suspect a pollution event, you are asked to call (512) 389-4848 or contact your regional Kills and Spills Team biologist.