Windows Mobile/TyTn II: Synchronisation (notes/files)??

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Fairly new to the latest incarnation of WM and am just getting to grips with a TyTn II which I've bought that overall I'm quite impressed with. There are a couple of issues that I'm having with it that probably stem from a lack of familiarity with WM and also from drawing comparison with Palm and Nokia devices which I have used previously as PDAs. Any comments to avoid me wasting hours trying to find out how to achieve the potentially unachievable would thus be much appreciated:

1) Synchronising - files/folders: My previous Palm handled this QUITE well where MS Office type docs were concerned (Documents To Go) and even the Nokia Phones seem to do what I want to achieve better than I can manage with the TyTn just now. Essentially, I want to be able to synchronise the TyTn with a folder on the PC that contains JUST a number of Office type documents which I want to synchronise. Currently, no matter what settings I opt for I cannot do this. I know I can drag and drop from the File Manager part of Windows Mobile Device Centre (Vista PC) but that will not achieve automated synch for changed versions etc. Currently I select Synch Files (which is not selected by default on WMDC) and then move the files I want copied into the device into that folder. OK so far. Yet, when I hit Synch it then seems to insist on copying EVERYTHING on the phone into that folder on the PC too!!!! That makes a snych quite a long process and essentially all I want to synch is the 8-10 Office docs I want. Is this beyond WM? I would have thought this a relatively basic requirement which even Nokia with its Briefcase folder seems to be capable of doing. I have tried deleting all the non-Office files out of the PC file synch folder that WMDC created and then uses but then of course that just result in them being taken off the phone when I Synch!!! I've scoured Help, the Manual and numerous sites trying to find away round this but so far I do not seem to be able to synch files unless I synch everything

2) Notes (Categories v Folders): I use Notes on a PC a lot and because I use so many I tend to have them bundled in categories. Despite what I try though I do not seem to be able to get any semblance of order to them when they come across to the TyTn which just shoves them all in 'My Documents' (this makes it a real pain when using Explorer on the device too as there are 200 or so notes to scroll through when looking). I've tried moving the notes on the TyTn to Folders on the device after they are copied over but that just seems to cause a second copy on the PC to be created with the 'note title/folder' format upon the next synch?? Outlook clearly uses categories in a way that does not seem to be replicated on WM/TyTn and as such it seems you can only achieve a long unorganised list of notes on the target device. Using folders on the device does not then read across well to Outlook.

I am conscious that there are apps out there that might allow better management of the Notes problem (Phat Notes) and there may be better folder/file synch options with software like Documents To Go but I am wondering if I'm missing something with the basics here that mean I should be able to do what I want. It does seem odd that selecting Synch Files should result in such an arbitrary copying of the whole content of the device when on may devices it is there merely to ensure you can create a Briefcase type folder to synch just what YOU want.

I have not yet upgraded to the new WM 6.1 either so not sure if that provides any solutions. I plan to do that shortly (and am assuming that if I do the WM 6.1 I won't ALSO need the ROM upgrade that was put up by HTC before that?). Any help much appreciated

Use GoodSync (Link). It allows Bi-directional sync, allows you to select folders to synchronize and has a host of other features. There is a free and pro verion of goodsync so check it out and decide which one you want.
IMO it can take care of almost all the things that you mentioned ...

Whats wrong with Outlook? It does Notes/Favs/Tasks/Calender/Contacts/E-mail...I mean theres not much it doesn't do besides SMS and Calling from computer. These are really easy to use and customize files to push back and forth when connected to Activesync.

Empgamer: I've got the same issues with WM6,1 as you described. I'm genuinely amazed that Windows Mobile syncing to windows (Vista, so no active sync for us) doesn't work out of the box when managing edited documents on your PC & PPC. The PalmOS, with Documents To Go, always did an excellent job of this. As for the notes, I can't even get Mobile Office OneNote to sync with OneNote on my PC! What's the point of that?
Anyway, I'd be very curious as to how you solved your issues; I'm currently spending countless hours trying to get the functionality on my Windows Mobile device that I took for granted on PalmOS. (BTW, DocsToGo doesn't support syncing on Windows Mobile! Seriously, that's one of the main things DTG had going for it. I'll never understand what developers think when they come out with these products.