Welp! I'm sorry about that! No idea what could be causing those issues! I'll have a look and see if I can do anything to help remedy the situation on my end. My best guess is that the file that deals with certain objects respawning/not respawning in game got deleted/corrupted somehow.
As for the SPACE/transform idea, I'll consider it! I thought that SPACE also did something if you moused over an object with an action that wasn't transform selected, but I guess that's not the case! Hopefully the issues haven't ruined the game for you, and again, I'm sorry that this has happened!