What this suggests to me is that your doublet is delocalised across the conjugated pi system.
Can you confirm that the carbons with positive electron density are all in the conjugated system next to where you removed the electron? The negative densities might be across the same system but on alternating carbons. You should check this too.
Remember that when you remove electrons from a molecule, the orbitals and remaining electrons don't stay static. They "relax" by feeling the change caused by removal of the other electron and will re-adjust accordingly. That unpaired electron would need to be somewhere pretty stable to stay in that single place. If you give it a chance, it will move and I think that's what has happened here but I can't see your entire molecule.
Playing around in Gaussview with the isoval value will remove the smaller densities and reveal where the most important delocation is happening.