Since we have renamed the search tools, applying a format query can be impossible, it tries to apply the format on the tool with the same id as when it has been saved.

See QueryFormatting.js line 60 :

var toolId = content.toolId;

var tool = Ametys.tool.ToolsManager.getTool(toolId);

Maybe it should be :

var tool = Ametys.tool.ToolsManager.getFocusedTool();