I am wondering if you can affect your reputation if do a lot of trading at certain bases. For example, I run engines from Houston to Mactan. If I keep doing this, will my reputation be affected? "Oh, there's that shady Torgen guy, always trading with those drugged-out Lane Hackers. We better keep an eye on him"

I could see where selling at a certain base a lot would mark you as a "supplier" for that faction, but buying at a certain base might not. So, you could have several options: Consistently selling at a base affects your rep with them, buying does, or both do, or neither do.

I'm probably just reading too much into the game again. It sure would be neat though if I could bring enough stuff to a Junker base that they'd warm up to me