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It may also be possible that MeGUI deletes the existing index to enforce recreating it when you create a new AviSynth script, because the indexer does not recognize if the index is up to date, and may not create a new index when you have a new content with the same file name, so L-SMASH Source may try to open new content with an old index which doesn't match the new content with the same file name...
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