Ok, I think I found a work around for this problem as below:
If you get the ORCAP-36006 warning when trying to generate netlist, you need to open a DOS command window, add the –l 255 switch to the netlist generator command (put it after the –v 3 command) and run it.
For example, if you get the following message in Capture after generating the netlist:
"C:\Cadence\Allegro16.6_InstallationFolder\tools\capture\pstswp.exe" -pst -d "D:\TEMP\SCHEMATICS\TEST2.DSN" -n "D:\TEMP\SCHEMATICS\allegro" -c "C:\Cadence\Allegro16.6_InstallationFolder\tools/capture/allegro.cfg" -v 3 -j "PCB Footprint" -hpath "HPathForCollision" –lite
Then you need to run the following command in the DOS command window:
"C:\Cadence\Allegro16.6_InstallationFolder\tools\capture\pstswp.exe" -pst -d "D:\TEMP\SCHEMATICS\TEST2.DSN" -n "D:\TEMP\SCHEMATICS\allegro" -c "C:\Cadence\Allegro16.6_InstallationFolder\tools/capture/allegro.cfg" -v 3 –l 255 -j "PCB Footprint" -hpath "HPathForCollision" -lite
After doing so, just go to PCB editor and import logic as usual. You are done.