- The Story: The story in Skyward Sword is one of the more flushed out stories in the series. This was also quite necessary, because the game takes place during a fairly defining moment in Hyrule's history. Twilight Princess' story is simpler, but has a lot of subtleties for the player that actually pays attention to the game's story. It also contains the coolest cutscene ever. However, even if I disagree with a part of the story, I cannot ignore how elaborate Skyward Sword actually is, and that it provides a well-told origin of the Master Sword and an explanation of it's power. > Skyward Sword
- The Graphics: Twilight Princess looked amazing for it's time. All it's surroundings and characters are heavily detailed and the moody graphical style fits perfectly with the depressing story of the game. Something that the monochrome world Twilight perfectly portrayes. Besides the obvious style differences, Skyward Sword's graphics are actually similar. They took Wii to it's limits how Twilight Princess took the GameCube to it's limits. I think it was a clever move, as the style of Skyward Sword on Wii's hardware doesn't make game feel outdated, and fits well with the esthetics of the sky. > Skyward Sword
- The Music and Sound: Skyward Sword features fully orchestrated music, like Super Mario Galaxy. Even the generic sound like the puzzle-solving jingle are orchestrated. This is a huge plus, because it sounds great. However, the game doesn't have any memorable tunes. From every Zelda game, I can think of at least one song in my head, but with Skyward Sword I find it hard to even think of the biggest song in the game; the Ballad of the Goddess (the sky-theme basically). Twilight Princess had these memorable tunes, even if they were only in a MIDI format. > Twilight Princess
- The Controls: I loved the 1-on-1 controls in Skyward Sword. It worked absolutely perfectly, showed the gaming world how motion control works good in a game and gave combat a whole different level and challenge. It had good implementation in puzzles also, but there was something that could've done without it; swimming. I'm perfectly fine with traditional controls like in Twilight Princess on GameCube or simple motion control like in Twilight Princess on Wii, but personally I'm always intrigued by new or unorthodox control schemes. That includes the motion control in Skyward Sword, but also the touch control of Phantom Hourglass. > Skyward Sword
- The Dungeons: This is a hard category to take a preference. Twilight Princess' amount of dungeons are of course a plus, as dungeons are usually my favorite part in any Zelda game. Skyward Sword's dungeons however are however very well designed. Both from a gameplay as well as an esthetical standpoint. My favorite here was either the Ancient Cistern (4th) or Skykeep (last). But, Twilight Princess's dungeons have it all. Superb integration of the dungeon items in each and lots of granduer in their designs. To top it off they are all quite big. The game includes many of my series' favorites, notably the Arbiter's Grounds and the Temple of Time, but really all of them all memorable in some way. > Twilight Princess
- The Boss Battles: This is of course tied to the dungeons. Twilight Princess' bosses are amazing, sadly Skyward Sword lacks a bit here. There's some cool ones, but most didn't stand out. Including the final bosses The Imprissoned III/Ghirahim III & Demise, which was (swordfight gameplay mechanics aside) underwhelming compared to Twilight Princess' final boss-streak of Possessed Zelda/Ganon/Horseback Ganondorf & Ganondorf himself. I did like the enemy horde part though, when you tried to reach Ghirahim and Zelda. Twilight Princess does also have my favorite boss from the entire series, Stallord, while none of Skyward Sword's bosses probably make it to my top 10 except for maybe Ancient Cistern's. > Twilight Princess
- The Items: Skyward Sword had a lot of stuff. A lot of collectibles. There weren't however, a lot of usable items. What I thought was a great addition though was that most were upgradable. The best Bow looked hideous, but it was useful to upgrade all these items, especially the shields. Twilight Princess had less things to keep track off, but had more usable items. The problem was that a lot of them weren't very useful anymore after their part in the story was over, but I didn't mind much. What wins it for me is they originality of Twilight Princess' items. The Beetle was cool in Skyward Sword, but the Spinner, the Dominion Rod, the Ball & Chain and the different Bombs were all very unexpected items with interesting uses. It was a very good thing that Skyward Sword used one of the best items in Zelda to date; the Double Clawshot, which originated in Twilight Princess. > Twilight Princess
- Transportation: It seems to be fashionable to have some mode of transportation in more recent Zelda games. First a boat, then another boat, then a train and in Skyward Sword a bird. While the bird is the best thing of that list, it used to be about the horse. Twilight Princess' horse transportation is still the best method. You are fast and probably have the most freedom of control on Epona. Combat isn't an afterthought. Twilight Princess also wins in the other form of transportation. While you can drop down to a couple of landing spots in Skyward Sword, warping through the Twilight portals is a lot more satisfying in Twilight Princess and finally getting the ability gives a much greater sense of accomplishment. > Twilight Princess
- The Side Quests: Both are fairly linear games, with little opportunity to get out your way. Twilight Princess did it better in that regard. However, Twilight Princess' side-quest are quite simple while those in Skyward Sword are all directly or indirectly part of one large and elaborate side-quest. Most of them are also imaginative and original and the conclusion of it all is actually rewarding. It's a shame that Skyward Sword doesn't include a lot of fun mini-games like Twilight Princess did though, but at least Skyward Sword had way better collectables. > Skyward Sword
- The Overworld: Twilight Princess wins this category hands down. In fact, Skyward Sword's overworld is what 'breaks the game' for me. To me it's tied with Wind Waker for the worst overworld of the 3D Zelda games. Wind Waker was too open, but Skyward Sword was too closed. Essentially, it's a couple of individual corridors leading up to a dungeon. There was no exploring, no roaming and worst of all no thinking. While the areas looked pretty, there was little to be found and each area not being connected ruined one of the foundations of Zelda. The sky was decent however, but it should've been bigger and there should've been more places to visit, more secrets to discover and more areas to be blocked off like the one inside the thunderstorm. > Twilight Princess
So Twilight Princess wins. 6-4 if you keep score.
A long post in hindsight, but I thought I might as well. I think both are very good games, but Twilight Princess wins one the most important points for me; dungeons, items and overworld. Of the 3D games I'd personally rank TP 2nd (after OoT) and SS 4th (after OoT, TP and MM, but before WW). When the 2D games are included I'd put TP at 3rd and SS at 6th because LA and ALttP would be included between them. I know opinions are extremely varied among Zelda fans, there's no consensus on anything really, so I can understand and respect what anyone's opinions are. There's little debating
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