SELECT 
  SQL_CALC_FOUND_ROWS products.product_id, 
  descr1.product as product, 
  companies.company as company_name, 
  products.product_type, 
  products.parent_product_id 
FROM 
  cscart_products as products 
  LEFT JOIN cscart_product_descriptions as descr1 ON descr1.product_id = products.product_id 
  AND descr1.lang_code = 'en' 
  LEFT JOIN cscart_product_prices as prices ON prices.product_id = products.product_id 
  AND prices.lower_limit = 1 
  LEFT JOIN cscart_companies AS companies ON companies.company_id = products.company_id 
  INNER JOIN cscart_products_categories as products_categories ON products_categories.product_id = products.product_id 
  INNER JOIN cscart_categories ON cscart_categories.category_id = products_categories.category_id 
  AND (
    cscart_categories.usergroup_ids = '' 
    OR FIND_IN_SET(
      0, cscart_categories.usergroup_ids
    ) 
    OR FIND_IN_SET(
      1, cscart_categories.usergroup_ids
    )
  ) 
  AND cscart_categories.status IN ('A', 'H') 
  AND cscart_categories.storefront_id IN (0, 1) 
  LEFT JOIN cscart_warehouses_sum_products_amount as war_sum_amount ON war_sum_amount.product_id = products.product_id 
  LEFT JOIN cscart_warehouses_destination_products_amount AS warehouses_destination_products_amount ON warehouses_destination_products_amount.product_id = products.product_id 
  AND warehouses_destination_products_amount.destination_id = 0 
  AND warehouses_destination_products_amount.storefront_id = 0 
  LEFT JOIN cscart_product_popularity as popularity ON popularity.product_id = products.product_id 
WHERE 
  1 
  AND cscart_categories.category_id IN (
    13, 112, 486, 113, 487, 488, 489, 114, 
    115, 116, 492, 117, 493, 494, 495, 496, 
    497, 498, 118, 119, 500, 501, 120, 502, 
    503, 504, 505, 121, 506, 507
  ) 
  AND products.product_id NOT IN (552333) 
  AND (
    (
      CASE products.is_stock_split_by_warehouses WHEN 'Y' THEN warehouses_destination_products_amount.amount ELSE products.amount END
    ) > 0 
    OR products.tracking = 'D' 
    OR products.tracking IS NULL
  ) 
  AND (
    products.usergroup_ids = '' 
    OR FIND_IN_SET(0, products.usergroup_ids) 
    OR FIND_IN_SET(1, products.usergroup_ids)
  ) 
  AND products.status IN ('A') 
  AND prices.usergroup_id IN (0, 0, 1) 
  AND products.parent_product_id = 0 
GROUP BY 
  products.product_id 
ORDER BY 
  popularity.total desc, 
  products.product_id ASC 
LIMIT 
  0, 6

Query time 0.24146

JSON explain

{
  "query_block": {
    "select_id": 1,
    "filesort": {
      "sort_key": "popularity.total desc, products.product_id",
      "temporary_table": {
        "table": {
          "table_name": "cscart_categories",
          "access_type": "range",
          "possible_keys": ["PRIMARY", "c_status", "p_category_id"],
          "key": "p_category_id",
          "key_length": "3",
          "used_key_parts": ["category_id"],
          "rows": 30,
          "filtered": 100,
          "index_condition": "cscart_categories.category_id in (13,112,486,113,487,488,489,114,115,116,492,117,493,494,495,496,497,498,118,119,500,501,120,502,503,504,505,121,506,507) and (cscart_categories.usergroup_ids = '' or find_in_set(0,cscart_categories.usergroup_ids) or find_in_set(1,cscart_categories.usergroup_ids)) and cscart_categories.`status` in ('A','H')",
          "attached_condition": "cscart_categories.storefront_id in (0,1)"
        },
        "table": {
          "table_name": "products_categories",
          "access_type": "ref",
          "possible_keys": ["PRIMARY", "pt"],
          "key": "PRIMARY",
          "key_length": "3",
          "used_key_parts": ["category_id"],
          "ref": ["staging2_wesave_com.cscart_categories.category_id"],
          "rows": 1188,
          "filtered": 73.82868958,
          "attached_condition": "products_categories.product_id <> 552333",
          "using_index": true
        },
        "table": {
          "table_name": "products",
          "access_type": "eq_ref",
          "possible_keys": ["PRIMARY", "status", "idx_parent_product_id"],
          "key": "PRIMARY",
          "key_length": "3",
          "used_key_parts": ["product_id"],
          "ref": ["staging2_wesave_com.products_categories.product_id"],
          "rows": 1,
          "filtered": 7.605616093,
          "attached_condition": "products.parent_product_id = 0 and (products.usergroup_ids = '' or find_in_set(0,products.usergroup_ids) or find_in_set(1,products.usergroup_ids)) and products.`status` = 'A'"
        },
        "table": {
          "table_name": "war_sum_amount",
          "access_type": "ref",
          "possible_keys": ["PRIMARY"],
          "key": "PRIMARY",
          "key_length": "3",
          "used_key_parts": ["product_id"],
          "ref": ["staging2_wesave_com.products_categories.product_id"],
          "rows": 1,
          "filtered": 100,
          "using_index": true
        },
        "table": {
          "table_name": "warehouses_destination_products_amount",
          "access_type": "eq_ref",
          "possible_keys": ["PRIMARY", "idx_storefront_id"],
          "key": "PRIMARY",
          "key_length": "9",
          "used_key_parts": ["product_id", "destination_id", "storefront_id"],
          "ref": [
            "staging2_wesave_com.products_categories.product_id",
            "const",
            "const"
          ],
          "rows": 1,
          "filtered": 100,
          "attached_condition": "trigcond(case products.is_stock_split_by_warehouses when 'Y' then warehouses_destination_products_amount.amount else products.amount end > 0 or products.tracking = 'D' or products.tracking is null)"
        },
        "table": {
          "table_name": "companies",
          "access_type": "eq_ref",
          "possible_keys": ["PRIMARY"],
          "key": "PRIMARY",
          "key_length": "4",
          "used_key_parts": ["company_id"],
          "ref": ["staging2_wesave_com.products.company_id"],
          "rows": 1,
          "filtered": 100
        },
        "table": {
          "table_name": "popularity",
          "access_type": "eq_ref",
          "possible_keys": ["PRIMARY", "total"],
          "key": "PRIMARY",
          "key_length": "3",
          "used_key_parts": ["product_id"],
          "ref": ["staging2_wesave_com.products_categories.product_id"],
          "rows": 1,
          "filtered": 100
        },
        "table": {
          "table_name": "prices",
          "access_type": "ref",
          "possible_keys": [
            "usergroup",
            "product_id",
            "lower_limit",
            "usergroup_id"
          ],
          "key": "product_id",
          "key_length": "3",
          "used_key_parts": ["product_id"],
          "ref": ["staging2_wesave_com.products_categories.product_id"],
          "rows": 1,
          "filtered": 100,
          "attached_condition": "prices.lower_limit = 1 and prices.usergroup_id in (0,0,1)",
          "using_index": true
        },
        "table": {
          "table_name": "descr1",
          "access_type": "eq_ref",
          "possible_keys": ["PRIMARY", "product_id"],
          "key": "PRIMARY",
          "key_length": "9",
          "used_key_parts": ["product_id", "lang_code"],
          "ref": ["staging2_wesave_com.products_categories.product_id", "const"],
          "rows": 1,
          "filtered": 100,
          "attached_condition": "trigcond(descr1.lang_code = 'en')"
        }
      }
    }
  }
}