hey outlander. this is because you have taken the ammo stacks out of your inventory and more than likely have filled the empty slots with loot. ive had the same issues. but if there is no room in your inventory to accomadate the stacks of ammo the game will get rid of whats in your clip. I hope this helps. but id gladly sacrifice cheaply made ammo for more electronics or glass, chems, etc. good luck out there