Wow! I just checked the Better Business Bureau's website and, even though they are an "accredited" business, they've had 15 complaints in the past 3 years - and those are only the complaints that have been filed! That seems like an awful lot: that's like one every 10 weeks!! I'm surprised that they can still be considered a BBB Accredited business w/that kind of record.
I cannot believe that a company can get away w/something like removing your furnace motor without something being signed! I would definitely file a complaint with the city of Berwyn. What about getting in touch w/ "the Fixer"? She writes a column in the Sun-Times: http://www.suntimes.com/forms/fixer/index.html
Otherwise, there's always Pro Se Court (small claims court) - it's like $56 to file for claims up to $250; not sure how much more time/effort you're willing to put forth over $99, which is probably what they're counting on: you'll get fed up and just pay them.
Good Luck!