Well, seeing that the BES install is screwed-up....I would start over with a clean install (again). This time however, I would uninstall BES (Add/Remove Programs), remove the ESM tool and the MSDE.
Clean out the registry (HKLM & HKCU) of any keys/subkeys associated with BES, ESM and MSDE. Reapply the OS service packs and updates, by this time you should've gone thru a couple of reboots...it's Windows. If you haven't given up as yet....then re-apply the MDAC and any other requirements.
Proceed to do an install of the BES software and it's related Service Packs & Hot Fixes.
Install the ESM again and test the MAPI subsystem initialization - fancy words for "can you connect to the Exchange server without any errors" - If at this stage there are no errors, I would export the registry just in case.
Before proceeding with the BES install, verify that you have all the required permissions on the Exchange Information store/organization levels for the BES service account that's being used for the install.
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