As an ABAPer, I can assure you that you will get much better performance with VBFA than with any other table. In VBFA you'll be searching by the VBELV and POSNV, which are the primary key. This should work quite fast, as long as the SELECT statement has been programmed correctly. I bet the poor performance has been caused by an inefficient SELECT statement. If you post the code fragment here, I might be able to suggest some improvements.
In MKPF you'll have to search by LE_VBELN field, which is not part of the primary key or any standard indexes. This will be very inefficient and I would not recommend that.
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