I don't have any real problems with this logic. I rarely write or see or play pure modes. Nowadays, I rarely play pure scales. I used this system years ago, so I wouldn't have to do tons of paper work to figure this out. In time you learn and quickly memorize the sound and fingering. Chords, intervals and tonal centers are visual on the guitar. This is a backdoor method without a lot of manual labor, like you would do on the piano. I always hated Trig and Calculus because of the long winded verbage. It is just easier to me, to get to the point and the result. I don't much care about keys. Music is much like a watercolor wash and collage. Music moves in a cycle, whether the type, popularity or the music itself. I extract what I need for the situation I'm in. Your example plus one: F#7 B7 Em7 A7 Dma7#11. You can play an entire D scale through this progression. I would just add just two notes to the scale, IF I wanted to. (A#, D#) It would sound perfectly legit and logical, either way.
As an excercise, all guitarists should be able to play the cycle of 4ths and 5ths in dominants in one position. A very enlightening excercise.