The 01E external dimensions are similar, there are a few subtle differences throughout the years however. Early cases (pre 1998) have the bolt pattern on the bell housing differing by two bolts and a dowel pin. The later transmissions also have provisions for the heat shields installed over the front axles, versus below for the earlier transmissions.
The gear ratios also differ as well, there are 3 choices for final drive and several other choices for 1-6 ratios.
I've put together a swap kit using a rebuilt tdi transmission for ~$3500.00 shipped for a few other list members. If you go the used route keep in mind that the 01E's are pretty problematic in regards to the 1-2 collar and fixing that costs ~$1100 plus labor.
The 0A3 is a different transmission entirely.. As Siena stated. The trans mounts differ, the shifter differ, there is only one style of output flange on the axles, the bolt pattern differ slightly and there are no provisions for a speedmeter pickup on the 0A3.
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