I finished a full playthrough on 1.0 with no issues, but now the "No Pause Menu" bug has hit me as well. In my case, it doesn't seem to be tied to a specific stage, but once it crops up, it persists even after closing/restarting the game, but is "fixed" by starting a new game (and overwriting your old save). I've had it had me as early as stage 4.
This would likely seem to indicate that something in the save file data is bugged or corrupted.