When comparing Andy vs MobaXterm, the Slant community recommends MobaXterm for most people. In the question“What are the best power user tools for Windows?” MobaXterm is ranked 27th while Andy is ranked 70th. The most important reason people chose MobaXterm is:
MobaXterm can connect to practically anything.
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 Flexible
MobaXterm can connect to practically anything.
Pro X server support
In case you need X11 forwarding, MobaXterm has an integrated X server.

Pro Full linux subsystem with package manager
And you can install conda for additional package management.
Pro Tabbed or split mode
Multiple terminals can either be in tabs or split horizontally or vertically.

Pro Integral remote file editor
Edit remote files via ssh and sftp
Pro SSH tunnel controls and forwarding UI controls makes it easy
Pro Automatic SFTP
With MobaXterm, there's no fiddling with multiple apps: simply connect and everything is available.
Pro Connection manager
Pro ENV can use Windows PATH
Pro Password vault
Pro Server tools (HTTPD, SSHD, SFTPD, TTFT)

Pro Build in sftp file manager
Manipulate and edit remote files in the file browser.

Pro Integrates with WSL
Integrates perfectly with the Windows Subsystem for Linux. Out of the box it offers a shell to that system.
Pro Supports macro controls (multi commands in single screen)
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 Not completely freeware
If you use MobaXterm at work, they hope you will pay for it. This isn't horrifying, but it's not providing any new features in Linux to warrant the outlay. Its integration with Putty in Windows as an X client may make it worth the funds.
Con Split screen prevents tabbed mode
If you split a screen within a tab, you have to go back to single screen before you can switch to another tab.
Con Can have some performance issues
MobaXterm can have some occasional performance issues. These happen rarely but it's worth mentioning that they exist, especially since this is a paid tool.
