If you've two points that the regression line cannot possibly pass through simultaneously, this is quite acceptable. In fact, it is very likely that you will take measurements from the same place. This is not a problem at all.
You do not seem to be thinking about this regression line properly. It is not the point's fault where it is. Leave the poor thing alone and just use its value.
The regression line is a line that minimizes the error from all points simultaneously, based on some minimization criteria (often least squares). It is NOT an effort at collocation. If it hits one point, that is interesting, but not very signiticant. If it fails to hit some point, that is normal.