I think your request is really over the top for Scanahand — even for the premium version. FontCreator Professional doesn’t even have OpenType features support yet. Its not a trivial thing to add as there are many different OpenType Features that users might need.
Contextual Ligatures may often be required for handwritten scripts. I think what you want is Randomised Letter Forms. To add them, you can use VOLT, or the free tools recommended in this Font Creator Tutorial thread. Adding OpenType Features.
After using Scanahand to create the desired alternative letter forms and/or ligature forms in the Private Use Area (is that possible?) you would then use the above free tools to add the OpenType Features. Its not trivial, but not terribly difficult for a computer savvy user.