Those in the screenshot are five identical Boomerang Bros, but only one of them loads correctly (it isn't a graphical glitch, they don't work at all). This bug also happens with every other custom sprite, but only in BSNES v078. The hack is pretty old, but I managed to fix every other incompatibility issue, could it be an emulation problem?
I don't understand why clearing ram is necessary. If a sprite or spritetool it's self is using uninitialized ram for some reason, then it's a bug in the sprite or spritetool, and even if you do this it's likely that ram will be overwritten with something anyway.
Mind explaining what the problem actually is and how this fixes it?
Your layout has been removed.