AN A320 FLIGHT CREW DEVIATED FROM THEIR CLEARED ROUTE BECAUSE OF AN IMPROPER ROUTE LOAD AT THEIR DEPARTURE STATION.

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NAV ERROR: ON GND FO INSERTED THE RTE. RWY 25R SJN3.SJN ABQ J18 DRAWL J18 JOT AS FILED. THEN FO INSERTED THE WINDS OFF THE FLT PLAN FOR EACH POINT ON THE RTE. THE CAPT CHKED THE RTE WITH THE PDC CLRNC: SJN3.SJN ABQ J18...AF THEN CHKED THE REST OF THE RTE WITH THE CLRNC PART OF THE RELEASE FO FUEL CHK AT ABQ. AFTER ABQ THE NEXT FIX SHOULD HAVE BEEN FTI. FTI WAS ON THE PAPER FLT PLAN AS BEING PART OF J18; BUT WAS NOT ON FLT PLAN PAGE IN THE MCDU; ABQ J18 DRAWL. WE BYPASSED FTI N ABOUT 6 MI; WHEN WE SHOULD HAVE BEEN FLYING TO FTI ON J18. FTI WAS NOT INSERTED WITH J18; OR IT DROPPED OUT; OR WE MISSED IT; BUT BOTH OF US REMEMBER CHKING ABQ J18 TO JOT. COULD USE THE FLT PLAN PORTION WITH EACH POINT ON THE FLT PLAN TO CHK THE RTE. INSTEAD OF USING THE CLRNC PORTION OF THE FLT PLAN. ONE PROB IS THE NEW FLT PLANS DO NOT LIST ALL THE INTXNS ON THE RTE THAT ARE PULLED FROM THE DATABASE ON A JET RTE. BY USING THE FLT PLAN PORTION OF THE RELEASE AND THE NAV DATA THERE CAN BE CONSIDERABLE CONFUSION WITH MISSING POINTS ALONG THE RTE. THE OLD FLT PLANNING SYS DID HAVE THEM ALL AND THE NAV DATA AND FLT PLAN PORTION ALWAYS MATCHED. CLRNC PORTION HAD ABQ J18 DRAWL J18 JOT. WHY NOT HAVE ABQ J18 JOT. WHEN PUTTING IN THE FLT PLAN PORTION IN THE MCDU MOST PLTS INSERT THE JET RTES AND POINTS OFF THE CLRNC PORTION EXACTLY AS WRITTEN. IF WE HAD INSERTED ABQ J18 JOT; THIS MAY HAVE STRUNG THE WHOLE J18 CORRECTLY INSTEAD OF INSERTING J18 TWICE WITH INTERMITTENT POINT DRAWL.