This will contain SPOILERS up to the second season finale, please don't post any spoilers from episodes beyond that.
I've been watching BSG for the first time and posting reviews of the episodes(feel free to read those as well), here are some of my thoughts on the series so far that wouldn't really fit into any one review.
1. Doctor/President Gaius Baltar - He's gone from a consummate coward who's only concern is saving his own skin, to a villain like figure. One who's willing to risk the exposure that comes with the spotlight if it gets him his drugs of choice; power, respect, and fame, though he'll settle for infamy on that last one. The democratically elected(in spite of Roslin's best efforts) leader of the Colonies, who yet seems more of a dictator than even his predecessor did. He claimed to have faith when he thought it could save him, and cast it off when he found something more tangible. Even if I didn't love his progression as a character, his performances are consistently amongst my favorites as his dialogue is often the most well written and his delivery only makes it better.
2. Kara "Starbuck" Thrace - Whenever I think of her it's hard not to hear Leoben's words to her in Flesh and Bone. She truly is damaged. A fighter that's been fighting for too long. Fighting with her allies when there were no enemies and with herself when there were no allies. In the cockpit or with her finger on a trigger might be the only times she can forget the things she's endured and made others endure. And yet, she can be happy so long as she has a war to fight, as long as she can live every day like it's her last, she's the one of the happiest people you'll meet. Though she is really covering up more pain than most people could stand. As for the actress, Katee Sackhoff adds to whats on the page in almost all of her scenes, often through her eyes alone.
Admiral Adama(though he was kind of stagnating in the episodes leading up to the finale but gave a good performance in the final 20 minutes), Sharon, and Chief Tyrol round out my top five.
1. Resurrection Ship Pt. 2 - My favorite of the firefight scenes thus far in the series and an end to my favorite storyline.
2. 33 - I went back and watched this one today to kind of remind myself of it, having developed a relationship with the characters made it much more enjoyable than it was the first time around(and I liked it a lot the first time). The "original" Sharon still unaware of what she truly is, the feeling of desperation amongst the entire crew, Apollo and Adama struggling with the decision to take down the Olympic Carrier, all made for an excellent piece of television.
3. Pegasus - Without a doubt the most intense episode of the series, and just a beautifully crafted one.
4. Kobol's Last Gleaming Pt. 2 - Some brilliant performances combined with incredible visuals.
5. Valley of Darkness - If only for Baltar's dream and Starbuck's scene in her apartment.
Surprisingly Good Stuff:
Cinematography - I really wasn't expecting much in this department but they've delivered some well crafted shots throughout the series and I like the general style of filming they use. Every light is just a touch too bright and every shadow a bit too dim, quick zooms that bring the focus on a character or event, and the hand-held look give the drama and action an interesting aspect. I think the raw feel really works for the show as the characters so often imitate it themselves, whether they're sporting scrapes & bruises or they've been going days without much sleep.
Music - This is a surprise mainly because I knew very little about the show, it became clear to me after time that the music was one of the best aspects. The beautiful repeating themes and gorgeous pieces of music that elevate a good scene into something extraordinary are prevalent through out the series so far and are a big part of the reason my favorite episodes are my favorite episodes.