Challenger 605
Flight Crew Instrument; Flight Crew Flight Instructor; Flight Crew Flight Engineer; Flight Crew Air Transport Pilot (ATP); Flight Crew Multiengine
Flight Crew Last 90 Days 70; Flight Crew Total 8000; Flight Crew Type 1750
Confusion; Troubleshooting; Communication Breakdown
ATC Issue All Types; Deviation - Track / Heading All Types; Deviation / Discrepancy - Procedural Clearance
Air Traffic Control Issued Advisory / Alert; Flight Crew Became Reoriented; Flight Crew Requested ATC Assistance / Clarification
Human Factors
Confusion by ATC when issuing flight plan clearance.  Two flight plans had been filed from ZZZ to ZZZ1 for our flight.  ATC issued us a clearance using the canceled flight plan. Flight crew attempted to reach ZZZ departure on the ground at ZZZ to obtain clearance from ZZZ to ZZZ1.  We were unable to contact ATC on the ground and proceeded to takeoff VFR and fly our route.  We departed ZZZ and flew the ZZZZZ2 RVAV departure.  We contacted ZZZ departure and received clearance. The controller cleared us to ZZZZZ intersection and then as filed.  ZZZZZ intersection was not on our filed route so we had the controller spell the fix.  The Controller handed us off to Center without clarification.  Checking on with Center; we questioned the route because we showed a reversal of course that flew us through an MOA.  The controller did not clarify our route and stated that once we climbed through FL290 he would be able to give us a better route.  We transferred to a third controller.  When we made the hard reversing turn at ZZZZZ intersection the controller told us to turn left 15 degrees we told her we were in the turn to MVA and requested a heading.  Once we entered the MOA the controller gave us a left turn to 010 to clear the MOA.  We questioned the routing again and she gave us a new route. We use Rockwell Collins ARINC flight planning service.  We also use iPADS for documentation.  The aircraft we operate automatically loads the flight plan into the FMS.  Two flight plans had been filed for the same leg but because of severe weather the original route was canceled and a new flight plan was generated.  Once the original flight plan had been canceled and deleted form the system I was unable to access it.  The only flight plan I could see was the second flight plan that was filed ZZZZZ 2 ZZZZZ1 MVA. I spoke with [personnel] from Center on the phone post flight and he explained that ZZZ TRACON had two flight plans in their system.  When this happens; the controller I received my clearance from should have given me a full route clearance.  If I would have received this we could have caught the error prior to entering the airspace. I as a pilot could have helped the situation by calling for my clearance on the phone prior to departure.  I would have had more time to look at the route and possibly been able to question the conflict.  I also should have stated that there had been two flight plans filed and I want to confirm the routing ATC has for us.
While working a combined D side on Sec. XX/XY/XZ during normal traffic Aircraft X was handed off to us in a Climb from Sec. XA. The R side continued their climb to FL370 and ran out their route line. The aircraft was seemingly on route around ZZZ2 that was active up to FL400. The aircraft was about 4 miles from the edge of the released ZZZ2. The pilot asked for a shortcut and the R side said unable and informed the pilot of the airspace off to their right. The pilot acknowledged and then a few seconds later made a right turn. I called [ZZZ2] and got the point out approved but at that point the aircraft had already violated the active airspace. The R side issued a turn out of the airspace once we realized the aircraft had turned. The pilot was under the impression that he was cleared after ZZZZZ direct to MVA by the previous controller. That route puts the aircraft directly through ZZZ2's airspace. It was explained to me after the situation was looked into that ZZZ Approach departed the aircraft and couldn't get it to tag up. The pilot had filed multiple flight plans; supposedly a North route (which keeps clear of ZZZ2) and a South route (that goes through the airspace) and seems likely that the wrong flight plan may have been departed or the pilot was under the impression that he was cleared via the south route which they preferred due to winds. The flight plan that was in the ARTCC system at the time of the incident was the north route and the aircraft was on route up until it made its turn after ZZZZZ. Being the high sector and seeing the aircraft on the correct route was misleading. I was also told that at some point the pilot had asked to verify his route; however I did not listen to any tapes and that supposedly happened either with Sec. XA or ZZZ Approach. From my standpoint; it was simply a pilot deviation; but shows the importance of hear back - read back when it comes to issuing route clearances both on the ground and in the air. This seems to be a mistake due to hear back - read back errors. Somewhere along the line the pilot was either issued the wrong clearance or possibly failed to update the route into their flight computer. Human error is something the industry deals with everyday and can not be avoided. I believe that the recurrent training and newsletters are a good way of continually bringing light to these situations. Until we have a functioning Data Comm system where the routing can be sent and verified via text and possibly automatically uploaded into the flight computer I think we will battle with these situations. Being diligent and listening for errors is the best way to help solve these types of issues.
Corporate pilot and ATC reported multiple flight plans filed and the wrong one was used causing the deviation.