Logical partitions are extended partitions, right? I don't really think it matters. My XP and boot partition are primary partitions, and the rest of mine are logical. The limit for primary partitions is 4 per drive, I think, so if you want more than 4, you need to use extended anyways.

Honestly I don't know if you really needed /tmp on its own partition. Especially since you're just using a home desktop computer, security isn't all that important. Not that it's going to hurt anything. What partition scheme you use really doesn't matter that much, so long as there's enough room for everything. It's all personal preference, so there is no right or wrong way to do stuff. You can fix it later if you don't like it, so long as you figure out what you want before you completely fill up your partitions with files.

I read a lot of conflicting statements about the bootable flag. On my system only the Windows partition is flagged as bootable. You're using grub/lilo anyways, and I think grub just ignores the bootable flags. If you have a Windows partition you want to boot Windows off of via grub, then make sure it has the bootable flag, otherwise I don't think it matters.

Dunno what you mean about setting up /home. If you mean adding new users and stuff, then yeah, you do that at the very end once the OS is working.

ext3 vs. reiserfs is a huge debate, like most things in Linux-land. ext3 is apparently better able to be recovered if it gets corrupted. reiserfs is apparently faster for desktop use. I use reiserfs, it gives me no problems. There's also xfs, which I don't know much about, but some people swear by it.