Since aMule looks for all the user files (what you call *.ini files) at /home/User/.aMule, you should create this subdirectory, move there the files and see what happens. Also look at the Prefs section 'directories'. These are the files:
subdirectories:
incoming
Temp
files:
addresses.dat
emfriends.met
known.met
preferences.dat
clients.met
lastversion
server.met
ipfilter.dat
logfile
server_met.old
cryptkey.dat
known2.met
muleconn
shareddir.dat