It sounds like your edited file was a bit larger than than the original when compressed, and overwrites nearby data when inserted. There's 2 options to correct this:
1. Edit the file again and "delete" any sprites that you no longer want (replace the graphics with a single color) That will allow the file to compress to a smaller size.
OR
2. The second option is to change the pointer in a hex editor, and the location you recompress to to match it. This puts the file in an area with more free space. This requires knowledge of SNES pointers, but here's a working example you can use:
In a hex editor go to offset 06FDF0. You will see the following 3 bytes: 569AC5 Replace that with A0DFDC. When you recompress, instead of 059A56 enter 1CDFA0.