[DerekAsirvadem]

There should be no problem at all with magnets and getting what you want, I have drawn hundreds of physical system diagrams, using both the provided magnets and custom magnets, without any problem.

The only thing we do not have is a start-magnet and end-magnet: magnets allow any end of a line to be connected.

Also, create a midpoint in the line (double-click) and move the midpoint above the shape (which will cause the connect to then be from above).

Also, you description does not clearly identify the exact problem, can you attach an example.

Cheers