Of course it could also be based on direct empirical observation, or just liking to hear the sounds of one's own tweets. On the other hand, the would-you-want-to-work-at-a-company-where position probably falls flat in the case of Uber...it already ate the cake.
Fact: If you're a male Uber employee, you're somewhat tainted by this association. Maybe just a little, or maybe more.
Conclusion: If you're competing against another candidate who is identical in all other respects except they don't have this association, you're at a disadvantage.
It's not fair to you, but that's the inescapable conclusion.
The bigger question is, do you believe that Uber is ultimately a force for good?
In addition to your salary and benefits, is it important to you that your efforts contribute to making the world a little bit better?
How many hiring managers actually care about this? I know it's PC to say that you care, but I doubt it would affect the actual decisions of many managers.
Would you really want to work at a company where a CEO is so prejudicial? I know I wouldn't (and I find the publicized culture of Uber incredibly repugnant).
If you're happy at your current position and aren't complicit in the abuse that's going on (seeing abuse but not doing anything about it) then stay. If you're concerned that in a subsequent interview that your position will color you, volunteer for a noble cause:
-Encouraging young women to pursue STEM education / careers
-Domestic Abuse NGO etc