Well, for the record, Kaepernick said:
If you believe in the concept of instiutional racism, then I think it could be easily said that he is absolutely protesting all that you mentioned.
And, in the same article from which I grabbed his quote, here are more comments he made later clarifying some positions:
Can't say that I have polled many. Just basing my reasoning off of what I have read by some. Including some from this thread.
Also how I have seen many military and ex-military treat the flag in the past.
Why isn't Kaepernick protesting black on black violent crime, lack of responsible male parents in inner city families, gang participation and lack of emphasis on education in inner cities.
The police are a small part of a much larger problem that no one seems to want to address so they just point their finger at the police.