IIRC it was not until pretty much the industrial revolution getting underway that Protestants in general really started to get into the idea of preaching the gospel to the heathen; before then, they were more interested in converting Catholics to Protestantism than getting non-Christians to become Christian, a fact which, among other things, saw the Netherlands make inroads where the Portuguese got kicked out because they were less pushy on matters of religion. So, a Huguenot controlled France is less likely to create colonies with the aim of "converting the heathen", which was always a major factor in Spanish colonialism.
I don't think that kicking Catholics out as settlers will become a universal state policy, since sending people from potentially hostile factions to profitable colonies is a recipe for disaster. However, just as Maryland was founded as an English Catholic colony, we may see wealthy Catholics who curry favor with the Huguenot king get permission to open a colony, and penal colonies may have a higher proportion of Catholics. However, I think that the main impetus for colonization by France will be trade or immediate extraction of wealth through mines or plantations, and not creating new markets through settler colonization as the English did. This is roughly like OTL, but ITTL, the Huguenots who found these sorts of colonies can expect more reliable support from the metropole.