ScriptableObject created from custom editor lose data on Unity restart

Well title says it all, i am creating a custom Node Editor i am adding my custom node windows and trying to save their info to a ScriptableObject created as asset. After hour of searching i get Unity doesn't like to serialize custom classes so i stripted it out of any and still nothing happens NodeDataContainer class looks like this after the striping... [Serializable] public class NodeDataContainer : ScriptableObject {

     //public List<BaseNode> windows = new List<BaseNode>();
     //[SerializeField]
     //public List<NodeDialogueDataContainer> dialoguesWindows = new List<NodeDialogueDataContainer>();
     //[SerializeField]
     //public List<NodeResponseDataContainer> responseWindows = new List<NodeResponseDataContainer>();
     [SerializeField]
     public string dataBaseName;
     [SerializeField]
     public DialogDataBase dataBaseReference;}

And here is how i am trying to Save to it from the NodeEditor class

 void SaveDrawings()
     {
         SerializedObject so;       //Second try with serializedObject instead
         if (dataBase== null)
             return;
 
         NodeDataContainer nc ;
         ScriptableObjectUtility.CreateAsset<NodeDataContainer>(dataBase.name+".save",out nc);  //creates Asset and returns a reference of it
         so = new SerializedObject(nc);      //creating the SerializedObject?
         nc.dataBaseName = dataBase.name;    
         so.FindProperty("dataBaseName").stringValue = dataBase.name;
         nc.dataBaseReference = dataBase;
         so.FindProperty("dataBaseReference").objectReferenceValue = dataBase;
         /*for(int i = 0; i < windows.Count; i++)
         {
             //nc.windows.Add(windows[i]);
             if (windows[i].GetType() == typeof(DialogueNode))
             {
                 DialogueNode dn = (DialogueNode)windows[i];
                 nc.dialoguesWindows.Add(new NodeDialogueDataContainer(dn.id, dn.dialogueID, dn.windowRect, dn.dialogue));
             }
             else if (windows[i].GetType() == typeof(ResponseNode))         //obsolete
             {
                 ResponseNode rn = (ResponseNode)windows[i];
                 nc.responseWindows.Add(new NodeResponseDataContainer(rn.id, rn.responseID, rn.windowRect, rn.dialogue, rn.dialogueResultID));
             }
         }*/
         so.Update();
         AssetDatabase.SaveAssets();
         AssetDatabase.Refresh();
         Debug.Log("Saved!");
         //UpdateFlags();
     }

Well lets ignore the lists for start (commended out) so I did try to use SerializedObject with FindProperty to make changes, nothing happend, if not use the SerializedObject everything seem to register properly until i restart Unity then the NodeDataContainer Asset is reseted. From SerializedObject.Update() to AssetDatabase.SaveAssets() nothing seem to work and i don't get what am i missing. Also i should note that i tried EditorUtility.SetDirty(nc) which would corrupt the Asset and make it inaccessible, also tried to add inside OnEnable of DataContainer hideFlag = HideFlags.hideanddontsave which would prevent Asset from being created. If you need more info please let me know. Any Insight on whats going wrong or what i am missing would be appreciated.

Note1: What i don't really get is why would Unity save the data of the Asset if i manipulate them from inspector while it won't through script.

Note2: Any insight on how i can save lists with the custom classes too would be great!

Note3:I know i could easily save the data directly on disc avoiding the whole thing of the Asset creation but i really want to figure this out...

Edit: here is how i create the assets if it matters

 public static void CreateAsset<T>(string name, out T asset) where T : ScriptableObject
         {
             string path = "Assets/Editor/NodeEditorSaveFiles";
             asset = ScriptableObject.CreateInstance<T>();
             AssetDatabase.CreateAsset(asset, path + "/" + name + ".asset");
             AssetDatabase.SaveAssets();
             AssetDatabase.Refresh();
             EditorUtility.FocusProjectWindow();
             Selection.activeObject = asset;
         }