This is not really a bug, but a problem in the X-Plane database the scenery used.
Check:
https://scenery.flightgear.org/static/map/index.html , search LEPP. It is more clear at the southern area of the runways: the database has two overlapping runways on this location.
The scenery tools didn't question this issue: "if the database says there are two runways, then I build two runways".
Also: both runways are shorter than the real runway. The runway was extended in 2010 and a new terminal was built. If I remember correctly, both the new an old terminals are in terrasync and this is OK.
I'm sure this is fixed in the last version of the airport in X-Plane, and it will be fixed automatically in the next world build.