String input="/*IF name!=null && !\"\".equals(name)*/\nAND t1.name like '%/*name*/%'\n/*END*/";
        System.out.println(input);
        Pattern p = Pattern.compile("/\\*IF[^\\%]*\\*/(.*)/\\*END\\*/", Pattern.DOTALL);
        Matcher mc = p.matcher(input);
        String result=mc.replaceAll("$1");
        System.out.println("*************************");
        System.out.println(result);

------解决方案--------------------
楼主的意思是最后的结果应该是：
AND t1.name like '%/*name*/%'