What we may have, then, is a case where, for the general public at least, the series that provides a better story isn't the same thing as the series that provides a better television viewing experience.
Come to that it might be interesting to compare B5 and DS9 on the level of story/character/production values/what-have-you...though I'm sure it's been done and will likely be done again, and may be such a matter of opinion that there's no consensus.
Personally I don't generally care to compare the two, as I feel the difference in approaches to storytelling make them ill-suited for comparison. B5 deserves a lot of credit for executing a story that was in many ways laid-out before the show even aired. Conversely DS9 was in many cases writing a lot more on-the-fly...however, I maintain that in some ways that means DS9 deserves more credit for situations where the story arcs worked well.
Besides: in the end, I enjoyed both of them, so why should I willingly seek to laud one to the detriment of the other?