Full System Recovery with Time Machine - Applications missing

Hi,
My Macbook recently met a nasty end by a glass of wine and ended up completely dead.  Not to fear, I thought, it's all backed up on my Time Machine.  So I got hold of a Mac Mini and started to attempt to restore my system using Time Machine.  When I got the new mini, I ran my Leopard install disc, and followed the restore from Time Machine process.  The first problem was that the version of OSX on my deceased macbook was newer than the fresh install I was putting on the mini, so the TM restore couldn't work.  So, I continued the clean install, got OSX up and running and then ran the software update so that it was all up to speed (now running 10.5.8 - same as the macbook was).
Next onto Migration Assistant to restore from my Time Machine backups.  All hunky dory, except that Migration Assistant told me that there were 0.0kb in the profiles.  Once I'd peeled myself off the ceiling, I tried it anyway.  Everything transferred across OK - settings, files, profiles, but no applications.  Lots of money's worth of iLife, iWork, CS5, Office for Mac - missing.  Files, but no way of opening them!
I had a root round in the TM backup and they were all there, but nothing at all transferred across in the restore.
What have I missed here?  Should I drag and drop each application over from the TM folder to my new Applications folder?  Surely the risk here is that I'll miss some system files in Application Support etc.
I really need some help here.  Most of my applications don't have install discs as they were downloaded either from Apple/MS/Adobe etc.

Not a fan nor expert on TM, but anyway you ca pull the old drive out of the WineBook & use something like this...
http://eshop.macsales.com/item/NewerTech/U3NVSPATA/

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