I'm sorry if i digress a bit from your reasoning, but i have mixed feelings about this...
I see "Control Weather" as a spell that modifies a natural environment, so it's influence is magical, but not the effect... Let me try to explain with an example: when you cast "Stone Shape", the stone changes form, but after that, the effect isn't magical.
So... IMO, the "Dispel Magic" would affect the "Control Weather" spell in that small area, yes, BUT the winds - which are not magical - wouldn't slow enough to make an impact. It would work, for example, if "Dispel Magic" was cast inside a "Blizzard" spell area, because the effect is caused entirely by magic.
If a "Control Winds" was cast in that area to calm the winds, however, that would cause the "bubble" to appear.