A lot of education sites are still running legacy web apps that use flash or java. You should check with you U and see if they have an ipad app instead of a web app.
Look at these ipad browsers that let you use flash.
Flash on the iPad and iPhone
Puffin
"Puffin Web Browser is a wicked fast Mobile Flash Browser. Once users experience the thrilling speed of Puffin, regular mobile Internet feels like torture. Puffin Free is the free version of the Puffin family and supports Adobe Flash over cloud during "off-peak hours" from 8AM to 4PM (subject to change without prior notice)"
Free:
https://itunes.apple.com/us/app/puffin-web-browser-free/id472937654?mt=8
Paid:
https://itunes.apple.com/us/app/puffin-web-browser/id406239138?mt=8
Photon Flash Player for iPad - Flash Video & Games plus Private Web Browser
https://itunes.apple.com/us/app/photon-flash-player-for-ipad/id430200224?mt=8
"java for iPad is now a reality! If you were ever wondering how to use java for iPad, now you can! With the Virtual-Browser for Firefox App, java for iPad is possible with one simple app download! Virtual-Browser for Firefox App opens up a wide variety of apps and games – like java for iPad – that you can use from your iPad"
http://www.virtualfirefox.com/java-for-ipad
By Splashtop Inc.
Flash Video Web Browser – Full Chrome, IE, Firefox, Safari Compatible
https://itunes.apple.com/us/app/flash-video-web-browser-full/id431331485?mt=8
VirtualBrowser for Firefox with Flash-browser, Java Player and Add-ons - iPhone Edition
https://itunes.apple.com/us/app/virtualbrowser-for-firefox/id609289360?mt=8
iPad web browsers set to IE:
http://www.macsinlaw.com/make-your-iphone-ipad-surf-like-internet-explorer-or-fi refox/