What if the MD blew up the tower to instigate this whole conflict in order to destroy the morons at Red Acropolis and to kill Dravis later?
You're flying a SPACE FIGHTER. Why do you have to fly through little canyons in outdoor levels that are conveniently just barely taller than what you can fly over?
He'd just uploaded his data, could not yet know Suzuki was one their side, and certainly had not been paid yet. Wouldn't he need to return back to the tower in order to get paid?
I'm going to assume that MD doesn't get any news video/radio/updates while traveling in the Pyro. He traveled all the way from Earth to Mars, yet was unaware of them being accused of being terrorists. If there was an upgrade the Pyro needs, it's a news transmission receiver or "news data link", because his communications receiver with PTMC, CED, and Red Acropolis sure doesn't seem to get anything else.
That's why you had to be dropped off at a secret location.
When you consider just how many mines, refineries, processing facilities, etc. that the PTMC controls or that the CED is involved with, disrupting a single facility would do nothing to gain more time for the Red Acroplolis refugees ... unless PTMC's organizations was really, really baldly managed.