After calling this $http request (with server.refresh();)
MinecraftServer.prototype.refresh = function(){
    return $http.get("http://mcping.net/api/" + this.ip).then(this.acceptData);
}
This function's this is the window object, instead of the MinecraftServer object:
MinecraftServer.prototype.acceptData = function(data){
    data = data.data
    if(data && data.online){
        this.online = data.online;
        //do more stuff       
    } else { // do more stuff }
}
So instead of the MinecraftServer object getting it's attributes updated, the window gets the attributes. 
In case this will help, here is my abriged factory code:
.factory('MinecraftServer',function($http){
    function MinecraftServer(name, ip) { //does stuff }
    MinecraftServer.prototype.acceptData = function(data){
        data = data.data
        if(data && data.online){
            this.online = data.online;
            //do more stuff       
        } else { // do more stuff }
    }
    MinecraftServer.prototype.refresh = function(){return $http.get("http://mcping.net/api/" + this.ip).then(this.acceptData);}
    MinecraftServer.build = function(name, ip){return new MinecraftServer(name, ip)};
    return MinecraftServer;
})
 
    