My WordPress Loop strange

@soberbanda The problem is I don’t have duplicate post in my site, but the post looping show duplicate and hide some of my existing post.

@soberbanda that method of using wp query even worst. I don’t think to loop a simple post in front page required to use wp query. That being said, I don’t think there’s something wrong with the code either. Just confused how the heck it happened.
I mean, I don’t have duplicate post in database/admin page, but it’s looping duplicate post in front page.
I even count the total page with the pagination, it shows correct number of my total post. But some of the post not appearing in front page because it’s duplicated by other post.

Ok, I finally solved the problem, but I don’t know wtf is going on, lol.
I research more and found this problem with same issues as mine.
https://wordpress.stackexchange.com/questions/364381/unwanted-duplicate-posts-showing-in-pagination-pages

@soberbanda It seems like you said, need to used wp query for index page maybe ?

So I changed the loop to wp query

<?php
              $paged = ( get_query_var( 'paged' ) ) ? get_query_var( 'paged' ) : 1;
              $query = new WP_Query( array( 'post_type' => 'post', 'post_status' => 'publish', 'paged'=> $paged) );

              ?>
            <?php while($query->have_posts()) : $query->the_post(); ?>

The duplicate only on the next pagination page, after changed with wp query, no more duplicated post. So any Idea where it went wrong ?
Or wordpress need to use wp query in index.php ?