I was in the exact same boat when I was preparing PhD applications (BA and MA from a philosophy program, focus in social and political thought and how it intersects with contemporary digital networks); when I went to conferences the philosophers thought I belonged in polisci and vice versa *grin*.
I found a department that fits me wonderfully - UVic has a strong theory department, lets you work in the Cultural, Social, and Political Thought program if you'd like (an interdisciplinary theory) - but few political science departments were as strong in theory as I wanted them to be. I didn't apply anywhere that I didn't think I'd fit in - in my MA I was the 'lone wolf' that has been described, and while bearable for a year I wouldn't want to spent 4 years in a PhD without comrades to bounce ideas off.
If you're interested in Frankfurt school and other continental thinkers then large departments like UoT and McGill might be appropriate (I'm Canadian, hence the Canadian examples). Similarly, there may be philosophy programs that offer you enough freedom that you can explore what you want rather than being confined by philosphical 'professionalism'. Were I you, I'd find particular academics you'd like to work with and ask them what they think of your 'fit' in the department. It can save you lots of money, demonstrate interest in a program, AND develop contacts with potential supervisors.