The National Science Foundation also compiles this information as a part of how it tracks Research and Development funding in the series Science and Engineering Statistics - Academic Research and Development Expenditures. The most recent year available from NSF is for FY2004.

The table of interest for this year is attached here:

TABLE 72. Federally financed R&D expenditures at universities and colleges, financed by the Department of Defense, ranked by DOD R&D expenditures, by science and engineering field: FY 2004