This happened to me, and a few others have reported it as well. Uninstalling and reinstalling the game fixed it for me. No need to delete saves or anything.

Same here. Save attached.

One consequence of this bug is that all luxury resources from mining bases (as opposed to on-planet resources on colonies) are sent to the capital, which consequently hobbles colonies. I suspect that this is causing some of the wider economic difficulties people are having ...

The compressed save file is still too large to attach here, so instead here is a google drive link to the file:

https://drive.google.com/file/d/1quru-ePmQk-Qt5MK6C3CI4mpYKCtZ6Sc/view?usp=sharing

The save is from a few days before the infinite popups kick in.

EDIT: and attached is a save from ...

I can't seem to find higher level hyper jump technology. I checked this thread on github and saw that I don't have "children" I'm supposed to have after "Enhanced HyperDrives", namely Accelerated Hyperjump and Hyper Slipstreaming slso I can research Advanced Hyperdrives.

I'm assuming you're ...

Thanks for the response, Eric. Policies are as follows:

Send Survey Team when --> Hidden Items Present Or Colonizable Or Populated
Investigate Ruins when --> Prompt
Investigate Abandoned Ships when --> Prompt

Screenshot of the infinite popups is attached. Note that the first popup is "Security ...

Some story events are skipping the choice stage and going straight to result. Some are going into an infinite popup. Options to investigate ruins, etc., pop up again after clicking "investigate."

Examples:

Prime Research Station skipping the blast vs. hack message and going into an infinite popup ...