Of course Eisenhower's MIC speech was not tied to any specific program, and to comment that "Eisenhower had the F-35 in mind when he stated the above more than half a century ago" would be unbelievably stupid if you weren't overused to pro-JSF trollicles, in which case it's all too believable.
Eisenhower's concern, I believe, was that industrial interests (sustaining production rates, keeping the "base" healthy) and military interests (once you lose force structure, whether it's bombers, fighters, carriers or submarines, it's hard to get it back) could converge to protect and sustain capabilities that the nation did not need.
According to his aide, Andrew Goodpaster, he wanted to add "Congressional" to the MIC to indicate the power of local votes.