LUMS PhD programs in Economics and Mathematics also, have been on for quite some years now. There is a good Physics Department; particularly the High Energy Physics group which currently constitutes of Prof Faheem, Tasneem Zehra and Asad Naqvi is a pretty fine one and should be producing some PhDs pretty soon. Faheem Hussain have worked in the Group of Dr. Salam in Italy , one of the best and classical scientist of the history of Cambridge and 1979 Physics Nobel Laureate.He also remained the Director General of NCP, QAU, Pakistan. There were a couple of students already working with Sabieh Anwar for their PhD.
LUMS VPDT
http://sse.lums.edu.pk/vpdt.htm