Hi Galileo,
It seems i have the same problem as you described.
I didn't read your post so i opened a new one yesterday.
Are you getting problem when using the source code at github?
This is the exact description of what i get if i use the source code, slewing 3 seconds then lost contact and freezing eqmod.
Everything rune fine when i use the hex firmware that is supplied in the config tool.
Unfortunatly in my case i need to change some pinmapping this is the reason i have no other choice to use the source code.