Try changing your formula to:

=IF(ROW(A1)>SUMPRODUCT(--(ISNUMBER(FIND({"TIME_IN_TO","SEGMENT NOT FOUND"},Sheet3!$A$1:$A$189300)))),"",INDEX(Sheet3!$A$1:$B$189300,SMALL(IF(ISNUMBER(FIND({"TIME_IN_TO","SEGMENT NOT FOUND"},Sheet3!$A$1:$A$189300)),ROW(Sheet3!$A$1:$A$189300)),ROW(A1)),2))

And:

=IF(ROW(A1)>SUMPRODUCT(--(ISNUMBER(FIND({"TIME_OUTOF","SEGMENT NOT FOUND"},Sheet3!$A$1:$A$189300)))),"",INDEX(Sheet3!$A$1:$B$189300,SMALL(IF(ISNUMBER(FIND({"TIME_OUTOF","SEGMENT NOT FOUND"},Sheet3!$A$1:$A$189300)),ROW(Sheet3!$A$1:$A$189300)),ROW(A1)),2))

That should keep everything lined up.