Removing Crossflow
1) You do need to remove the gear shift lever to remove the trans. I don't have carpet on my trans tunnel, and my cover just pulls off. I think some trans covers are screwed into the tunnel. It's a bit of a wrestling match to get the cover off. Loosening the handbrake cable will allow the handbrake lever to go almost vertical and make it easier to get the cover off - although I've gotten mine off just be pulling the lever up as far as possible. Once the cover is off, it's 3 bolts to remove the lever. I haven't had to remove the seats - don't think you would either, but if you have carpet on the trans tunnel, that may change things.
2) I opted to split the engine from the bell housing and pull the engine out by itself. Advantage to that is that trans fluid won't be pouring out of the tail of the trans - which it does as soon as the trans isn't level. You need to get the engine pretty vertical to pull it out this way, and it's tight - but it's doable. Lots of pros and cons of this approach on Blatchat (http://www.blatchat.com/). The search function works well. Just change the time period to "Since from the beginning".
3) May want to cover the front frame members with pipe insulation to protect the powder coating.
4) If you take the engine/trans out together, be sure to disconnect the backup light connection and the speedometer cable. Brake light connection is on the right hand side of the tail. I think there are several styles of connections. Mine is like a 9 volt battery, and just pulls off. I think there is a newer style connection with two poles, but believe it also just pulls off. If you don't remove both, the trans will never come out.
5) There are two ways to disconnect the trans mount from the trans mounting plate on the chassis. You can undo the large bolt that connects the rubber mount to the transmission (there is an access hole in the mounting plate and spacer), or undo the two bolts connecting the mount to the chassis. I opted for the later. If you undo the large bolt, I've read that there is small lip on the rubber mount, and the tail of the trans may need to be lifted a bit to get over it.
6) Have a leveler for the engine hoist. Makes life much easier, and if you remove the engine separately you won't be able to get it out without one. I also found it extremely helpful when I put the engine/trans back in - and they went back in as one unit.
7) I have a bell housing plate between the bell housing and engine. Mine is split, and I know I ended up wrestling to get it removed before I could get the engine separate enough to start to remove. Not an issue if the engine/trans comes out as a unit.
8) Clutch cable or hydraulic? Mine is hydraulic, and I undid the connection to the clutch arm so I could remove the slave cylinder from the bell housing without having to drain and remove the hose. If it's a cable, guess you just have to get it off the clutch arm.
9) Be sure to disconnect the fuel line from the fuel pump - assuming that you're using the mechanical pump on the Crossflow.
You also need to remove the alternator. In general, I would takes notes, draw schematics for conntections, label wires, and take pictures.