A B757-200 CROSSES POM; CA; 1000 FT ABOVE PUBLISHED ALT BECAUSE THE AUTOMATIC FLT CTLS WERE IN VNAV.

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ON DEP ON POMONA 6 SID WITH AN 8000 FT AT OR BELOW RESTR AT POMONA WE WERE USING LNAV AND VNAV. THE CTLR QUESTIONED OUR ALT WHICH WAS 9000 FT AND SAID WE HAD A RESTR OF 8000 FT. OUR LNAV WAS AT THAT TIME DIRECTING A TURN TOWARD DAG 227 DEG RADIAL HAVING DROPPED THE LAST WAYPOINT POMONA AND ALLOWING US TO CLB TO OUR NEXT ALT. THAT WAS A NORMAL LNAV; VNAV SIT. IF THIS DEP DOES TAKE INTO ACCOUNT THE NORMAL LNAV; VNAV OP IT NEEDS TO BE CHANGED TO ALLOW FOR HOW THESE FUNCTIONS OPERATE. IN OTHER WORDS OUR NAV SYS SHOWED US PAST THE RESTRICTIVE FIX AND ALLOWED US TO CLB TO OUR NEXT ALT. SUPPLEMENTAL INFO FROM ACN 385080: ATC CTLR ADVISED US OF ALTDEV DURING POMONA SIX DEP FROM ONTARIO ARPT. THERE IS AN ALT XING RESTR AT POMONA VOR AT OR BELOW 8000 FT. OUR NAV SYS SHOWED US AT VOR AND TURNING TO NEXT WAYPOINT. WE CONTINUED CLB TO 14000 FT ASSIGNED. ATC CTLR ADVISED US THAT WE WERE HIGHER THAN 8000 FT AT POMONA. OUR CLB RATE WAS 3000 FPM. OUR FMC WAS IN VERT NAV MODE AND LATERAL NAV MODE. WHEN WE ARRIVE AT WAYPOINT; THE WAYPOINT CHANGES DISTANCE AND TIME IN ZULU OF NEXT WAYPOINT. THIS HAD HAPPENED WHEN CTLR ADVISED US OF OVER POMONA VOR.