Turning on "Autoscale Y axis" would be the way to fix that.
However, the setting will not take effect until you select a different molecule or peptide, or otherwise cause the graph to update.

In general, if you are experiencing weird issues with Skyline you can get back to the default settings using the "Clear all saved settings" button on the "Miscellaneous" tab at "Tools > Options".
However, be aware clearing the saved settings will do other things such as delete any custom reports you may have defined.
-- Nick

Hi Nick--clear all saved settings worked, thank you!!!!