When comparing Andy vs ConEmu, the Slant community recommends ConEmu for most people. In the question“What are the best power user tools for Windows?” ConEmu is ranked 9th while Andy is ranked 70th. The most important reason people chose ConEmu is:
ConEmu allows running CMD, PowerShell, Cygwin, PuTTY, TCC/LE, etc.
Ranked in these QuestionsQuestion Ranking
Pros
Pro Can be rooted
To root Andy download this rootkit, extract the archive and run AndyRootkit30.exe. It comes with frequently installed root applications that can be installed in the process and also allows unrooting Andy.
Pro Easy to get started
As long as virtualization is enabled in BIOS, the setup is straightforward. Simply download, install, run. First time the software runs it will ask to either log in with a Google account or create one allowing it to download software directly from the Play Store.

Pro The virtual machine Andy runs in is highly customizable
With some tinkering, Andy can be set up to run with up to 3GB of RAM, the current Android 32bit RAM limit. It allows for a smooth experience and offers enough power to have multiple apps running simultaneously. The VM can even add more virtual CPU cores to Andy, doubling it's processing power or more.
Pro Use of Genymotion VHD allows Andy to be very fast
Andy is built on top of the powerful Genymotion VHD. It takes advantage of OpenGL capable graphics cards allowing it to be one of the fastest Android emulators.

Pro Allows installing third-party launchers
Andy comes with a custom clever implementation of ADW. It is theme-able, while functions very well without any modifications. The app sorting is a nice touch. Andy is compatible with most Android launchers.

Pro Great application compatibility and stability
Andy is constantly optimizing for applications to perform better on their system. Their support staff has a reporting setup to get the right information to the developers as fast as possible.

Pro Allows using a smartphone as a controller
It can't stream media to a phone, but it can work as a game controller. It allows for accelerometer- and touch-based interactions.

Pro Good customer support
Andy manages support mostly through a Facebook group where both knowledgeable admins and smart community members help answer questions.

Pro Fully functioning notifications and widgets
Andy supports all traditional Android widgets and notifications. It can even use apps like Push Bullet to send those notifications to their other devices.

Pro Great Clash of Clans gameplay experience
The new launcher provided for, it seems, limitless number of Andy tablets. Have a Andy just for CoC with 3GB and 4CPUs to maximize your CoC play to the next level. Then make a full copy of that machine for a full backup. Have an Andy for the children, be able to lock each Andy with a password lock-screen. And manage all this with less only 7 buttons ;) Again, Simple and powerful.

Pro Simple OS upgrade process
As of this latest version, users can be notified of new versions and incremental changes. It's possible to update only certain pieces or parts, rather than downloading an entirely new build. Andy is also exploring OTA update possibilities.
Pro Andy is available in over 40 languages.
For a full list of supported languages, see here.

Pro All apps and settings can be synced between Andy and an Android device on the same network with 1ClickSync
While setting up Andy, 1ClickSync will ask for Google Account credentials that allow keeping apps and their settings in sync between Andy and an Android device.

Pro Available on Windows 7 & 8
Andy is available on Windows 7 and 8.1 PCs with OS X support in development.
Pro No signup required
Downloading Andy requires only one click with no email address or account needed.
Pro Can be used with any shell
ConEmu allows running CMD, PowerShell, Cygwin, PuTTY, TCC/LE, etc.
Pro Highly customizable
You can configure a plethora of settings, including shortcuts and aesthetics (background image, transparency, colors, and fonts) per software.
Pro Explorer integration
ConEmu integrates well with Explorer.
Pro Highly configurable hotkeys
Hotkeys allow the user to easily trigger an action and can be configured to their liking.
Pro Tab support
ConEmu allows the user to create tabs (Win+W by default) for separate instances of the terminal window, allowing them to have both multiple shells and multiple instances of the same shell open. The user can also set up a startup directory for each tab and run each tab as a specific user or rights.
Pro Run DOS applications with DosBox
If you have both ConEmu and DosBox installed, you can run DOS applications (and games) within a 64-bit OS environment.
Pro Integrates with FarManager
ConEmu was originally designed as an updated front-end specifically for the FarManager, which means it has increased functionality.
Pro Progress Bar integration
ConEmu permits the user to check up on the progress of an operation with a quick glance at the taskbar, without needing to bring the app to the foreground.
Pro Useful status bar details
Not only does the status bar show detailed information out-of-the-box, it can be configured for your specific needs.
Pro Free and open source
ConEmu is licensed under New BSD which is a class of very simple and liberal software licenses.
Pro Dynamically resize the window
You can change the width and height of the console window without having to reset your session.
Pro Run simple GUI apps within a ConEmu tab
With -new_console and -cur_console switches you can run simple GUI apps in a ConEmu tab (or split).
Pro Transparent, Quake-style mode
You can set up ConEmu as a transparent, Quake-style console by following these instructions.
Pro Supports borderless mode
To put ConEmu in borderless mode:
Set Main -> Appearance -> Frame Width to 0
Pro Supports Jump Lists
ConEmu allows pinning commands to Jump Lists (available in Windows 7 & 8; accessed by right-clicking the application in the taskbar), giving you quick access to common tasks and configurations.
Pro Search in console input/output history
ConEmu supports searching in all text that has been printed or entered in the console history.
Pro Actively developed
ConEmu is under active development. Updates roll out almost daily with bugfixes and new features.
Pro Box selection
ConEmu offers multiple, configurable ways of interacting with text, including an ability to select text in a rectangular way.
Pro Built-in screenshot tool
The screenshot tool allows the user to capture their computer desktop or anything shown on their computer screen in a static image file.
Pro Auto discovers your shells
Zero config gets you all your installed shells.
Pro Closest replacement for iTerm2 users
Supports many of the features that iTerm users have become accustom to (like multiple tabs, highlighting, configurable scroll bars, decent support for themed color pallets to support basic/solarized/etc.).
Pro Works well with Vim/Neovim on Windows
There were issues before that forced me to use graphical versions of Vim/Neovim, but latest versions of Conemu + Neovim, seem to be working much better on Windows now.
Pro Works well with WSL/Tmux/Neovim/SSH
There were issues before in the WSL usage scenario that forced me to use an X gui terminal using X forwarding, but now Conemu is working great, and is the only terminal I use from Windows/WSL.
Cons
Con Andy's Installer is known to drop/install a bitcoin miner
Andy's Installer has been reported to drop a bitcoin miner on users computer which causes significant drop in PC performance.

Con Still on Jelly Bean
KitKat version is planned.
Con No Linux Version
Con Can crash your mac
Con Only installs in Windows Drive C:/
Which is where windows is installed. What's more, it does not let you change the installation path.
Con Quite resource intensive
Con Default look is somewhat unpleasant
In order to get a more pleasant look and feel, you may need to customize ConEmu yourself.
Con Layering of features per tab works with limited functionality
Can't do all of this, but it can theme colors per terminal:
Tab 1: I want it transparent, with a fixed background, with a certain color scheme, running powershell
Tab 2: Similar thing, but different bg, theme, and running posh as admin
Tab 3: Similar thing, but different bg, theme, and running cygwin
Con Bad scrolling support
The mouse wheel scroll doesn't transfer to terminal applications by default. It moves to the blank space instead of scrolling actual text content. This is especially true for ConEmu where there doesn't seem to be a way to make it work better.
Con It is slow
If you have a console process that outputs a lot, ConEmu will be the slowest option. Everything else will be faster. Even Terminus, which is, common, a packed web browser app. In my tests if ConEmu takes one unit of time, Terminus and Windows Terminal will be 0.6, FluentTerminal 0.35, Alacritty 0.3.
Con Poor performance with WSL
Con Screen scrapes from real console
ConEmu always runs the standard Windows console - ‘real console’, but it is hidden most of time.
This adds overhead, introduces another layer of complexity, and frequently creates irritating strange glitches (lost keys, messed up spacing) for heavy users.
Con Only simple, black and white emoji
It's not much, but is sad we can't get colored emojis. May change soon, I'm working on a PR.
Con No remote connections
A terminal emulator should emulate a terminal, i.e. a local input/output device to a remote computer. ConEmu can only run local processes in a window (albeit nicer than the local command shell window).
