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I have for historically reasons always kept my profiles for Thunderbird and Firefox in a user defined directory. For this reason I need to point them at the correct directory structure when I reinstall them.
Follow up:
Copy the ~/mozilla_profiles directory to the new location.
Point the new profile at ~/mozillia_profiles/Firefox/Profiles/aaaaaaaaa.default/
Point the new profile at ~/mozillia_profiles/Thunderbird/Profiles/aaaaaaaaa.default/