Using FMS with Garmin 1000 set for full GPS point A to B. Also entered Flight Plan File for same A to B.
Set as appropriate: VNAV, LOC, OBS to GPS. NAV1 set to B.
ISSUE: ATC not coordinated with GPS - FFL or PROC.
If I follow ATC directions NAV1 point A to B, such directions out of sync with GPS pathway.
If I Cancel ILS, I can fly GPS point A to B without any flight issue, from takeoff to landing, thus ATC not active.
Am I missing some type entry or selection for ATC to some how coordinate with GPS flight entries. Or is there a way to use ATC for ground, tower to takeoff, then ATC for landing clearance when using GPS flight planning.