When I flew to Spain last February, they only check my passport at Los Angeles Airport, I flew to Paris to made a transfer to Madrid, in Paris airport they looked at my passport opened it and let me pass, once in Barajas airport in Madrid, nobody checked me and suddenly I was on the street.
there is no stamp or anyother thing in my passport that show that I was in Spain, I do not know how can they will know if I decided to stay more than 90 days in Spain.
To avoid problems maybe you go 2 days to Marrocco in Africa and then go back to Spain, that should be count as a new entrance and you will have another 90 days.
Rafael