Right click on the Loft Feature and select Edit Feature.
Click on the Transistion tab of the Loft dialog box.
Uncheck Automatic Point Mapping.
As you cycle though the point sets you will see different point maps highlight red.
Drag the end points for improper mapped points to their correct map location.
See the attached (pull down the red End of Part marker in the browser to see geometry).
Autodesk Inventor Certified Expert
Certified SolidWorks Professional
http://home.pct.edu/~jmather/content..._tutorials.htm