Lots of people who like uTorrent simply use older versions, like the last version right before all the contested changes of v3 (v2.2.1 Build 25302 which you can get here[1]), or even some of the older 1.8x versions.
This is the beauty of an open protocol. No matter how much market share one client gets, if it screw up everyone just move to the next.
Imagine if everyone were using gshare and the company decided everyone had to use gshare+ and all the data was dependent on their servers/network. Good luck trying to keep an older version or trying an alternative after one company dominated the majority of the market.
One of the Deluge feature I appreciate is its ability to run a Deluge service on a machine and being able to connect to it from any Deluge client (there is a GUI and a terminal client). In my experience it's less tedious than transmission service to set up.
You can use a remote connection to connect to uTorrent but it goes through uTorrent's server for authentication if my memory serves me well.
I SO second this, and I raise you an excellent web-interface to boot. I have it running on a (headless) server and it's simply wonderful. On the tablet, I installed Torrent Manager which can connect to Deluge (and other daemons like Vuze) and it actually handles magnet links from the browser. I'm very happy about this setup.
uTorrent... I had to stop using uTorrent because it just stopped working. All torrents failed before they really started. I don't remember the error but I installed Tixati, which is also very functional (but now I have no Windows machine that I want to use for any torrent-related things anymore).
uTorrent has a webUI that allows you to log to it remotely; you have to install it on the PC that uTorrent resides on. You set the authentication details on said PC, so I doubt it goes through any sort of server, as it doesn't need to.
I'm not a fan of the Transmission UI, and much prefer Deluge because its UI is much like uTorrent's but without all the bloat of more recent versions. It's become my standard client since I found out about it.
Windows users can turn to Free Download Manager[1]. It's open source (GPL)[2] and just works like uTorrent does. It supports HTTP, FTP, BitTorrent, audio/video preview, partial ZIP downloads, rate limiting, download scheduling, download from multiple mirrors and Chrome/IE/Firefox/Clipboard integration. Plus it "looks native."
I have been using it for years and have never gone wrong - it's extremely fast and because it's FOSS it is obviously ad/spyware/searchware free.
Edit: I am not affiliated with these guys in any way - just a happy user.
I'm not sure I would specifically "blame" uTorrent for this, it's the shame shady practice that a lot of software uses now to install other crapware. You need to be very careful when installing anything free so uncheck all those toolbar installers and things.
But, there are a lot of other torrent clients listed here, I will be trying some of these out :)
Since there are a lot of suggestions here, I'd like to add my personal favorite: http://baretorrent.org/
While it does not have all of the features of more heavy torrent clients, it does have a plugin system - although not many plugins exist yet. It's cross-platform, open source, and pretty light. The author has good priorities and is conscious about issues such as privacy, and having good installers that aren't bundled with questionable content.
Thanks for posting this. I'd forgotten about Transmission.
Anecdotally, I had occasion to fire up a torrent client and grabbed uTorrent, what I used some time ago and found to be a good client. I was shocked to see how it had turned into crapware. It felt like sleazy garbage and I actually worried I'd inadvertently installed spyware on my machine.
I was going to say just this, but found this comment. I was an Azureus user, but they jumped the shark. Then I switched to uTorrent, and was delighted that the resource use on my computer went down a ton. Then uTorrent started getting bloatware I didn't want, but by then, Transmission had gotten good.
http://www.transmissionbt.com