Unfortunately, it seems that currently there is no known solution to deactivate the Mouse tap and swipe input when using the PUAE Amiga core. This can indeed lead to conflicts with the Joystick input in games that allow both input devices simultaneously. It is recommended to check for any updates or patches to the core that may address this issue. Additionally, you may consider reaching out to the developer or community forums for further assistance or to see if there are any workarounds available.