I seriously doubt it. Cleaning the squirrel cage is sort of a standard thing to do. Recommending that a qualified servicer does it is also pretty standard because there is a shock hazard. It's 120 volts, and not only that, but a lot of motors have a capacitor hooked up to it that will continue to hold 370 volts even after the power is switched off to the unit. Not everyone knows this! So it's fairly easy to get knocked on your butt if you don't realize this and take precautions. Capacitors can be discharged safely so that one won't have to worry about getting shocked. All you do to discharge a capacitor is to remove one wire from it (either side) and short the two terminals together with an insulated screwdriver or some implement. You may get a teeny spark but not usually. Then it's safe to handle or test the micro-farads.
If the unit had any sort of new type, or specialized filter that was designed into the unit, for that specific application/unit, then you can bet money that it's mentioned in the book/paperwork. That would be a pretty big departure away from what is considered as a standard/typical component furnished furnace unit. They do this sometimes here and there (especially Lennox, bah!) for various purposes, but they make it obvious,
especially something that would have to be routinely serviced or cleaned.
(Page 7 of Manual.)
"2. BLOWERS – The blower size and speed determine the
air volume delivered by the furnace. The blower motor
bearings are factory lubricated and under normal
operating conditions usually do not require servicing.
Annual cleaning of the blower wheel and housing is
recommended for maximum air output, and this must be
performed only by a qualified servicer or service agency./"
This is where it would be. Nothing about a secondary or specialized filter on the unit. I'm not saying the guy lied to you, more likely, it was a miscommunication. This is easy in the trade because so few people have a grasp on how the equipment operates, or the terminology associated with it. Much less specialized features of a specific unit.
Over time, I have realized that a lot of people are...scared of their furnace...(not necessarily you), "I wouldn't want it to blow up!" is one that I hear quite often. This shouldn't be so. Your furnace is your friend. The better you know your friend, the less intimidation there is. It takes massive amounts of gas in just the right mixture to explode. The ratio that one needs of NG (Natural Gas) in the air for an explosion is 5 to 15% by volume of the room.
This is a lot of gas. They never really say it on the news, because it adds insult to injury, but 99% of the explosions that you hear about, the people were doing something stupid and not exercising common sense. So...respect you furnace, but don't be terrified of it.