Suddenly I have two home pages

Greetings, self taught Dreamweaver user so be kind. Recently had to reinstall DW and since then my ftp connection has caused problems. I have used this for years without issues, but now it seems I have two versions of my home page. If I go to my site as xxx.com I get one version and then type xxx.com/index.php I get another. Making changes in DW sometimes go through and others not. Tried using Filezilla to up load my local file and I don't see the changes. I've looked at this every way I know. Any help is appreciated.