In addition to par-baking the crust longer, you could also try warming the filling to about 120° or 130°F before putting it in the prebaked crust. (Do this carefully, to avoid curdling the egg.) That reduces the amount of time the wet filling spends in contact with the crust before it sets. This trick also works for pumpkin and other custard-type pies.
2 things may have happened. 1) the crust wasn't pre-baked long enough so it may have still be doughy inside; or 2) there was a hole somewhere in the crust and the filling leaked in causing the crust to get soggy.
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