I have seen this for previous versions but this is mostly just a post to update previous bug reports as this is currently still occuring in the latest pre-release. The screenshot is inside my storage room (I have noticed it happen in other places, however this is the most persistant place). The room is under a hollow mountain and rain seems to only persist under upside down stairs in this room, however also occurs under a dirt and stone roof (part of a custom hill, not sure if this occurs through generated caves and terrain)
Environment
Mac OS Mojave (10.14.6)
2.5 GHz Intel Core i5
Intel HD Graphics 4000 1536 MB
Java version has not been updated manually to the best of my knowledge.
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