Will my items be safe in the End of Time location if i bring a few chests and place them in there and use that as a Stash? As I'm not sure if there is a actual stash (only been playing a few hours so far).
Yes. Your stuff would be safe in Cyseal, as well, placed in chests. Some NPC AI can pick stuff up off the ground (like opponents picking up dropped healing potions and drinking them).