The issue you're experiencing with polygons appearing disaligned and mixed after export is likely related to texture packing settings. When exporting, ensure that the texture packing settings are consistent with what you see in the Spine editor. One common cause of such issues is mismatching the PNG and atlas with the JSON file. Re-exporting all three files (PNG, atlas, and JSON) together can help ensure they are correctly aligned. Additionally, check if the texture packing type (e.g., Polygons vs. Rectangles) is causing the problem. Sometimes, switching to a different packing type, such as Grid, can resolve alignment issues. Also, verify that the texture import settings in your web player environment are correctly configured, especially regarding power-of-two textures and compression settings.