Modification effect speedo
Any changes from stock WILL effect the accuracy of the speedo. (Actually, they weren't terribly accurate in the beginning.) Changes in tire diameter, differential gearing, transmission drive and driven gears, etc. will definitely throw the speedo off.
You can experient with different driven gears as a curative but a shop specializing in speedos is a better source of a solution. The driven gear is available in different tooth configurations and are useful in achueving the desired correction (either to indicate greater speed or less).
You discription does NOT indicate the spwecific problem hence it is impossible to ACCURATELY say which would achieve what you want to do.