'Hate' is a strong word, so I've just gone through those which I either took a disliking to or was disappointed by...
The Christmas Invasion - I hated what they did with Harriet Jones. The story was passable, but generic. The Runaway Bride was the better story from RTD's Christmas selection.
The Girl in the Fireplace - has its moments, looks beautifully made, but terribly overrated and even awkward to watch in some places.
Blink - I like it, but terribly overrated. Relies too heavily on the jumps and scares...when you know where they are, the story is otherwise lacking something.
Utopia - again I like it, but it was really those final ten minutes that made it special. The other 35 minutes felt like filler - made a bit more notable by the return of John Barrowman.
The Waters of Mars - another I like, but terribly overrated. The character work was superb, the concept amazing, the cheesy running zombies were a major let down, and Tennant's acting as a 'Timelord Victorious' was somehow both laughable and grating.
The End of Time - particularly Part One, but this is a story I never need to see again. The epitome of wasted potential.
The Impossible Astronaut/Day of the Moon - an okay story, particularly part two but let down by the fact it continues through Series 6 and never delivers a solid resolution. Also, it prided itself as being more important than the other stories of the series.
A Good Man Goes To War - disappointing on every level. At least Lets Kill Hitler was fun.
The Wedding of River Song - the reason why finales need to be two-parts, and why an ongoing story arc needs a proper resolution. Nice comeback for Churchill though, and brilliant Simon Callow cameo.
Dinosaurs on a Spaceship - I've seen this gain more approval since it was broadcast. For me it actually got even worse with multiple viewings... episodes like these make me embarassed to say I watch the show - which is a shame as it was bookended by brilliant stories.
The Bells of Saint John - awful stuff, and a huge waste of Celia Imrie who was pretty much the only good thing about it.
The Day of the Doctor - I disliked the 50th Anniversary special for so many reasons, despite wanting to love it. My expectations were low, and still not met.
Deep Breath - a wobbly start to an otherwise solid eighth series.
Flatline - I was just bored throughout this one. Some decent ideas, but as a whole it felt like a glorified version of Fear Her. It was just a bit dull.