Anecdotally, we are finding the yDNA SNPs (especially under R1b which has 50% of European-descent testers, are providing a deeper haplogroup than the prediction with the y37 STR test. So as long as some others in the project have done a FamilyFinder or BigY test, this new FamilyFinder can get you a deeper (more recently created)) Haplogroup and thus more of an assurance your tester is matching the others with the surname and yDNA you expect. A further upside is the FamilyFinder is usually 1/2 and sometimes 1/3 the cost of the entry level y37 STR test. As an example, see the case developed when providing advice to a previous project tester that had done a y12 which matched exactly with two different groups. We show below how the two groups diverge in the phylogenetic tree and how the FamilyFinder gets a little deeper than a y37 STR predicted haplogroup with NevGen. Also that the FamilyFinder haplogroup will show in the yDNA Results Overview of the project whereas the yDNA STR predicted haplogroup will not.
The downside of FamilyFinder is you still likely want to test with AncestryDNA to get into their segment match database that is nearly 30 times larger than the FTDNA one. And you get now credit against money spent if and when you upgrade to a yDNA-only STR or BigY test. Although the credit in upgrade has been decreasing from an original 1:1; now usually only $0.50 on the dollar.
NOTE: ''The yDNA SNPs are not provided in the same file as the merged atxDNA of before. This mainly because (a) the yDNA SNPs are reported in Build38 whereas the atxDNA is in the more traditional Build37, and (b) the yDNA SNPs use SNP names instead of rsIDs. Most yDNA SNP names can be found in the yBrowse database.