Enblend is the tool that figures out where to blend the lines, it seams to have a randomness when figuring some parts of where to blend photos together. I have tested it a lot and near as I can tell that is the only part in my work flow that changes much and it is just a little here and there. Most of the time it is not noticeable. If that is a problem you might try multiblend I have not messed with it much but I do know it works differently and it may give you consistent results. Also check the documentation on enblend, there may have been mention of the seed generator in there.
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