I think others are making you worry for nothing. I bought my bike from motorcycle superstore and did not have these kinds of issues. I negotiated a much cheaper price that put my bike on par of a good deal found on Craigslist or Kijiji. They are a dealership and as such operate like a dealership. Expect the person you are talking to is overworked and underpaid too. This goes a long way getting respect from dealers and will help when negotiating price. I got my bike the day it was scheduled for pickup, I also gave them a month knowing that they were super busy and backed up. As a precaution I snapped a few photos of the bike that I put a deposit on, never hurts.
When you hear about others issues, try to take them with a grain of salt. You're only getting one side of the story so you have to read it between the lines. In the thread posted above it sounds like the buyer could have done things differently for another outcome. The reason the guy didn't get some parts was because they have to safety the bike and make it legal. It sounds like he was impatient and was getting the run around about when the bike would be ready. Now from dealing with them, they tell you that they cannot truly tell until the day before, when a bike will be ready. It's how they line em up to be serviced. The mechanic just has a list of bikes, all in order.
When the guy picked up his bike it was hen that he should declare all things changed or wrong. He should have refused delivery of the bike till he talked to the owner (forget the mans name but has a long pony tail) and have the items resolved. Reading between the lines it sounds like they guy saw the bike, got super excited and happy, blinded by his new purchase he doesn't inspect it fully. They safety the bike to Ontario law and he picks it up not noticing anything wrong and finds later problems with it. To be truthful it may have happened that the things the buyer found were in fact correct. If that is the case then he missed the proper opportunity to have it all addressed. Had he taken pictures for example, he would have proof to back up claims.
Also to be truthful, the staff at the shop are a little rude and uncultured. But that's like every company and person I deal with these days. If you know a dog barks, you know how to handle the dog and keep it from barking. The shop isn't that bad provided you're on the ball. In regards to needing a mechanic to come with you, I think that's too much. If it will make you feel better then by all means, however the money you spend on a mechanic could go further in the price of the bike.