The software on the mini Holux disk isn't needed (or used - there's no linux driver there that would work on the N800).

I've only used my Holux (M1200, which is quite similar to M1000) with Maemo Mapper.
I simply do as follows:
- turn on GPS
- turn on BT on the N800 (with switchonbt - MM doesn't seem to automatically turn it on)
- start MM
- go into Settings
- GPS tab, choose Bluetooth, and Scan
- Select my Holux
- click OK
- select GPS
- select Enable

That's all. And after that it's just a matter of enabling/disabling GPS (unless I want to change to another GPS, e.g. my old one.)