NoNewsIsGoodNews
If you don't use the iOS Newsstand app, you might want to hide its icon. Unfortunately, Apple doesn't let you put it in your "crap I don't use" folder.
Jailbreakers have an easy solution. Install NoNewsIsGoodNews, and marvel as the Newsstand icon evaporates. If you have any Newsstand magazines, their icons will move to the homescreen.
MapsOpener
iOS users rejoiced when the standalone Google Maps app hit the App Store. But when you open maps links in Safari or other apps, iOS still defaults to Apple Maps. MapsOpener saves the day by making Google Maps the iOS default maps app.
iBlacklist
Do you have an ex who just won't let go? Or did your phone number once belong to someone who owed a lot of money? Install iBlacklist, and you can block any number.
It's highly customizable, with blacklists, whitelists, and options to block all unknown numbers.
CameraTweak
The App Store is full of third-party camera apps that add extra photography tools. CameraTweak, though, integrates several new tricks into the stock iOS camera app.
After installing, the camera app will have new controls like separate focus/exposure, white balance, and a timer countdown.
Like all the best Cydia apps, CameraTweak adds functionality without over-complicating.
RetinaPad
If you run iPhone apps upscaled on a non-Retina iPad (including the iPad mini), they're so pixelated you'll think you're playing an Atari game. RetinaPad solves this by running them in 3.5-inch iPhones' Retina (960 x 640) resolution.
Winterboard, Dreamboard
Want to radically alter the look and feel of iOS? The classic Winterboard and newer Dreamboard have you covered.
The apps themselves are only the starting points. Cydia is chock full of themes, and your level of customization is only limited by developers' imaginations.
PKGBackup
When you have a jailbroken device, upgrading or restoring is a pain. PKGBackup simplifies the process of reinstalling your Cydia apps. It backs them up, stores them locally or in the cloud, and restores automatically.
Robert Broglia's gaming emulators
If you want to play classic Mario, Zelda, or Sonic games on your iPhone or iPad, Cydia has a number of emulators for old-school consoles. We recommend developer Robert Broglia's emulators (like NES.emu, SNes9x EX, and MD.emu) for their rock-solid emulation, customization, and polished virtual controls.
In many regions, distributing game ROMs is considered a copyright violation, so we'd recommend researching your country's rules before proceeding.
Octopus Keyboard
Octopus Keyboard is a solid knock-off of the BlackBerry 10 keyboard. Like the BB10 QWERTY, tapping a key will bring up tiny predictions for the word you're typing. If you see the word you're going for, just swipe up to select.
It may be a blatant BlackBerry rip-off, but Octopus Keyboard can save you some keystrokes … and spice up Apple's unchanged-after-six-years stock keyboard.
Pull to Dismiss
If you've ever wanted a quick way to dismiss the iPhone keyboard, check out Pull to Dismiss. As its name implies, pulling down on the keyboard slides it off of the screen. Handy for apps with poor keyboard implementation.
MultiIconMover
Moving multiple apps to different homescreens can be an exercise in tedium. This tweak makes it easy.
To use, hold one icon until it wiggles, then tap every other icon you want to move. Slide to the screen you want to move them to, press the home button, and – presto! – your apps are there.
Stride
Stride replaces your iPhone's "slide to unlock" with custom unlock gestures. It's more secure than the standard unlock method, and much more fun than using a passcode.
Springtomize 2
Springtomize 2 is like 100 jailbreak tweaks in one. It's a toolbox for making changes to your homescreen, dock, carrier logo, and many other aspects of iOS. Tweaks are arranged by category, and easily toggled.
PasswordPilot Pro
Do you ever tire of entering your Apple ID password for every purchase or update? Password Pilot lets you customize the App Store’s verification requirements.
Just know that you'll be opening the door to anyone else who uses your phone to easily make purchases.
Hands-free Control
Hands-free Control lets you evoke Siri without touching your iDevice. Designate a keyword (the default is "Siri") that will activate the virtual assistant. Say the magic word, and Siri will spring into action – even if you're on the other side of the room.
AssistantLove
Siri is happy to take musical requests, but the assistant can only play music from your iTunes library. AssistantLove links to your Spotify account (if you’re a paid subscriber), plugging Siri into an enormous music database.
As a nice bonus, AssistantLove also lets you set Google Maps (or a variety of other mapping apps) as Siri's default for directions.
IntelliscreenX, LockInfo
Want to pimp your lockscreen? Both IntelliscreenX and LockInfo have you covered. They let you customize its look and the information it shows.
LockInfo is the more customizable of the two, letting you tweak nearly every aspect of your notifications. IntelliscreenX is simpler and more streamlined, and – as a nice bonus – includes Messages+ with your purchase.
Dashboard X 2.0
Android has long embraced widgets, but – apart from a couple in Notification Center – Apple hasn’t allowed them in iOS. Dashboard X 2.0 puts that decision back in your hands.
After installing Dashboard X 2.0, you can place any Cydia widget (usually meant for Notification Center) on your homescreen. Everything from your Facebook feed to HTC-like weather widgets are fair game.