As what you mentioned and rightly pointed out, the strength and main draw is the commentaries and resources for Logos, and the exegetical, linguistic tools for BibleWorks. I’ve been in full-time ministry for about 10 years, and spent 3 years in seminary.

Whilst in seminary, doing an M.Div in pastoral ministries, we mainly used BibleWorks, especially for my Greek and Hebrew language and exegesis modules, also a little for Homiletics for preparation. It’s very technical, and I would say, it would be very helpful if you already have a working knowledge or skills in working with the original languages. Parsing, inflections, mood, person, exegetical structure, those who know it understand what I mean.

Since graduating 4.5 years back, and being in pastoral ministry, with occasional (not regular) preaching, teaching responsibilities, our church uses Logos, previously Logos 3 (Libronix, or LDS) and just this year, we’ve been upgraded with a church subsidy for Logos 4 (specifically the Scholar’s Edition). Apart from the original language tools (which might be slightly less impressive or extensive than BibleWorks), there are loads of background tools, commentaries, dictionaries, sermons, outlines, illustrations, printable atlases/maps, etc. This I find, whether as a pro or con, cuts down my preparation time and aids me when I need to work on something quickly, with lots of available resources. Also, and this will probably be a plus for millenials or younger generations, Logos 4 is now Mac and Android-friendly, with free apps to load onto your Iphone, Ipad or Android device (for me, HTC) to access Logos on the go. Friend of mine says he even knows how to adapt Logos books onto his Kindle.

So depends on your needs and requirements. If you need or prefer to wrestle with the original texts, perhaps as a academician, linguist, translator, regular expository preacher, then BibleWorks is for you. If you enjoy studying extensively beyond the text, and want something powerful enough at your fingertips to last a lifetime, then Logos is your best bet.

If budget-constrained, besides using free stuff on the web, best advice is: pay for an annual membership at your local seminary library. I still fall back on this when I can’t get what I need (or can’t afford to pay) for additional resources e.g. NICOT/NICNT costs US$1,600!