if you are trying to process ADS-B from two different dongles, running two dump1090's isn't a problem. i routinely run dump1090 and rtl_acars using two dongles on the same machine simultaneously. when running two dump1090 process you must provide the device id for each and make sure both aren't running their web servers on the same port.
a more useful setup is to have multiple receivers running on cheap servers (e.g. raspberry pi) at different locations and then collecting and correlating the data. having receivers at different locations should yield a larger coverage area.