I would go through the member list of AITU (Association of Independent Technological Universities). There are about 20 AITU schools, they are all engineering-oriented, and many of them are small with Division III athletics. RPI and WPI are examples. Clarkson is another, with aerospace engineering and DIII swimming. Stevens Institute of Technology has an aerospace minor and DIII swimming. Some of these schools are not highly selective and might give good merit aid to a student with high stats.
http://www.theaitu.org/about.html
The AITU is only for private schools, so it would not include state schools that might be of potential interest, such as Alabama-Huntsville, Colorado Mines, or Missouri S&T.