Yes, as long as all WoAI traffic files are converted, you'll see both the WoAI and default traffic. Not sure what you mean by 'coincide'. You should not have default and WoAI ac flying the same schedule, unless by sheer coincidence. Every ai flight is on it's own fixed schedule. WoAI are on real world schedules, while the defaut are fiction.
One thing I forgot....when installing the 'Flightplan BGL converter'...it requires the installation of Java Runtime. If you don't have Java installed or prefer not to install it, another option is AI Flight Planner. It is a full function ai traffic file creator/editor/explorer. It has an auto-convert function. It requires .net 2.0, which you already have installed if the WoAI installer functions.
AI Flight Planner-http://members.shaw.ca/aifp/
Note: once you convert traffic files, the WoAI Expert mode will not be able to show flight plan information. It can't read the FSX format. However, AI Flight Planner can give you all the info (airports, arrival/departures...etc.) for any traffic file.
At that time  the chief engineer was almost always the chief test pilot as well. That had the fortunate result of eliminating poor engineering early in aviation.