Now here's a question. In the movie, why do they split up at this point and take separate ships down to the surface? They don't give any reason at all, they just split up:
Qui-Gon: Let's split up. Stow aboard separate ships and meet down on the planet.But they have no guarantee that the ships they take will land anywhere near each other, so there's a good chance they'll never be able to find one another again.
You could argue that one stowaway on a ship will be more likely to go unnoticed than two, but they're Jedi - nobody's going to notice them anyway if they don't want them to. About the only moderately sensible option is that by splitting up it's more likely that at least one of them will make it down to the planet, if some bizarre disaster should happen to befall the ship that the other is on. However, no reason at all is given, so we're left to merely speculate on this strange decision by Qui-Gon.
For our comic, we had to have them split up to follow the movie continuity, so we decided to come up with at least some sort of justification. The good part is that by putting it into the mouth of the PCs, it can be as far-fetched as we want it to be.
GM: It looks like the Trade Federation are sending a droid invasion fleet down to the planet.
Obi-Wan: This is bad. They'll almost certainly open the airlocks rather than risk letting us live.
GM: Um... huh.
Obi-Wan: There's no time to lose. We need to split up and sneak about troop carriers. We can't count on there being enough air in one carrier for both of us.
GM: Wouldn't you rather stay in orbit, together, and deal with the leaders?
Qui-Gon: We should do what the bad guys least expect.
GM: You could try and follow my plot, that's what I least expect right now.
Qui-Gon: No, we're going down to the planet. What's it like?
GM: Er... um... Earth-like?
Obi-Wan: Hmmm. Convenient.