SELECT 
  products.company_id, 
  COUNT(DISTINCT products.product_id) as products_count 
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 = 11 
  AND warehouses_destination_products_amount.storefront_id = 0 
WHERE 
  1 = 1 
  AND (
    companies.status IN ('A') 
    OR products.company_id = 0
  ) 
  AND products.company_id IN (
    2, 3, 4, 7, 14, 15, 21, 23, 25, 26, 27, 28, 
    30, 31, 33, 34, 35, 36, 37, 38, 40, 72, 
    73, 74, 78, 89, 0
  ) 
  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'
  ) 
  AND products.status IN ('A') 
  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.master_product_status IN ('A') 
  AND products.product_type != 'D' 
  AND products.company_id IN (4) 
GROUP BY 
  products.company_id

Query time 0.00108

JSON explain

{
  "query_block": {
    "select_id": 1,
    "cost": 1.81434117,
    "nested_loop": [
      {
        "table": {
          "table_name": "products",
          "access_type": "ALL",
          "possible_keys": ["PRIMARY", "status"],
          "loops": 1,
          "rows": 465,
          "cost": 0.098617,
          "filtered": 59.13978577,
          "attached_condition": "products.company_id = 4 and products.company_id in (2,3,4,7,14,15,21,23,25,26,27,28,30,31,33,34,35,36,37,38,40,72,73,74,78,89,0) and products.`status` = 'A' and (products.usergroup_ids = '' or find_in_set(0,products.usergroup_ids) or find_in_set(1,products.usergroup_ids)) and products.master_product_status = 'A' and products.product_type <> 'D'"
        }
      },
      {
        "table": {
          "table_name": "prices",
          "access_type": "ref",
          "possible_keys": [
            "usergroup",
            "product_id",
            "lower_limit",
            "usergroup_id"
          ],
          "key": "usergroup",
          "key_length": "3",
          "used_key_parts": ["product_id"],
          "ref": ["u428615623_ecartifygonje.products.product_id"],
          "loops": 275,
          "rows": 1,
          "cost": 0.26771435,
          "filtered": 99.14712524,
          "attached_condition": "prices.lower_limit = 1 and prices.usergroup_id in (0,0,1)"
        }
      },
      {
        "table": {
          "table_name": "companies",
          "access_type": "const",
          "possible_keys": ["PRIMARY"],
          "key": "PRIMARY",
          "key_length": "4",
          "used_key_parts": ["company_id"],
          "ref": ["const"],
          "loops": 272.6545842,
          "rows": 1,
          "cost": 0.251549629,
          "filtered": 100,
          "attached_condition": "trigcond(companies.`status` = 'A')"
        }
      },
      {
        "table": {
          "table_name": "products_categories",
          "access_type": "ref",
          "possible_keys": ["PRIMARY", "pt"],
          "key": "pt",
          "key_length": "3",
          "used_key_parts": ["product_id"],
          "ref": ["u428615623_ecartifygonje.products.product_id"],
          "loops": 272.6545842,
          "rows": 1,
          "cost": 0.266222536,
          "filtered": 100,
          "using_index": true
        }
      },
      {
        "table": {
          "table_name": "cscart_categories",
          "access_type": "eq_ref",
          "possible_keys": ["PRIMARY", "c_status", "p_category_id"],
          "key": "PRIMARY",
          "key_length": "3",
          "used_key_parts": ["category_id"],
          "ref": ["u428615623_ecartifygonje.products_categories.category_id"],
          "loops": 272.6545842,
          "rows": 1,
          "cost": 0.244692366,
          "filtered": 100,
          "attached_condition": "(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)"
        }
      },
      {
        "table": {
          "table_name": "war_sum_amount",
          "access_type": "ref",
          "possible_keys": ["PRIMARY"],
          "key": "PRIMARY",
          "key_length": "3",
          "used_key_parts": ["product_id"],
          "ref": ["u428615623_ecartifygonje.products.product_id"],
          "loops": 272.6545842,
          "rows": 1,
          "cost": 0.263813632,
          "filtered": 100
        }
      },
      {
        "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": ["u428615623_ecartifygonje.products.product_id", "const", "const"],
          "loops": 272.6545842,
          "rows": 1,
          "cost": 0.244692366,
          "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')"
        }
      }
    ]
  }
}