Thanks for playing and taking the time to share your experience! Some of the negatives you've listed have already been fixed in the secret testing build (come by the discord if you want to check it out early, it'll be coming in an update to the public version this week). Health location has been removed and replaced by a breakroom that only appears when you're at 1 health.
We will be adding a save system so you can leave in the middle of a run and come back. However, you will still have to start over from Monday when you die. That aspect of roguelikes is very important to us. If it helps, we consider winning on Monday to already be an accomplishment and getting to Friday to be a nearly impossible feat for the very skilled!
You can already rearrange perks. Just click one and drag it around.
More lore will definitely be explored in the future!