I could only deal by watching this episode backward, scene by scene. Done that way, I was ok with how it ended.
My main quibble is that, no matter what Christopher may claim and this show has always pushed, Rory is not a "force of nature." She's smart, sure, but kind of an emotional fuck-up, and has in some ways been stunted by a lack of consequences. I'm hopeful for her at the end, though. Although the obvious parallel is that she's following in her mother's path, she's starting on that path from a very different point. She's highly educated, will never lack for emotional (or, honestly, financial) support, and has some concept of what's ahead of her.
In fact, I probably respect her most for her choice to go it alone, at least at first, at least for now. I'm seeing reactions from various "teams" about lack of closure, and how it's all very open to interpretation, and I guess it is. However, for me, there are some logical "and thens," as long as I believe that Rory doesn't intend to be 100% a dick. She'll tell Logan about the pregnancy at some point. Unless Odette is prepared to start the "dynasty" off knowing she's been cheated on and that Logan is about to be a father of someone else's baby, that marriage will be off. Logan may, in fact, go the Christopher route, or he may grow the fuck up and be there for his kid. And Rory may stay single, or find someone new, or reconcile with Logan, or co-parent with Logan, or someday end up with Jess, but not on such an obvious rebound. I mean--watch it backwards like I did. Knowing what we know by the end, every conversation, every decision, every relationship note makes sense. All in all, I'm optimistic. And Luke is made to be a step-grandpa.
ETA: Or, obv, Rory could choose to terminate her pregnancy.