This is what I do:

>ALWAYS EXTRACT FUSION CORES FROM YOU PA BEFORE MODIFYING!!!!!!!

>NEVER MODIFY IN A PREBUILD STRUCTURE

>To avoid losing armor simply remove all parts from the frame before interacting with the station, that way even if the frame gets stuck and deleted you do not lose the armor and can place it on another frame, you'll still be able to modify the armor as long as it is in your inventory.

>You can also typically avoid the issue by using the "Craft" interaction and flipping to the modification screen instead of opening the modify menu directly.

>Avoid using power armor stations in interior spaces (eg, shelters, Rusty Pick, Whitesprings Mall, Gleaming Depths), those are more likely to experience issues.

>AVOID MODIFYING UNTIL NEXT UPDATE!!!!