SELECT 
  cscart_product_prices.product_id, 
  MIN(
    IF(
      cscart_product_prices.percentage_discount = 0, 
      cscart_product_prices.price, 
      cscart_product_prices.price - (
        cscart_product_prices.price * cscart_product_prices.percentage_discount
      )/ 100
    )
  ) AS price 
FROM 
  cscart_product_prices 
WHERE 
  cscart_product_prices.product_id IN (
    1818, 1819, 3744, 3745, 3746, 3747, 5461, 
    5462, 5463, 5464, 5465, 5466, 5467, 
    5468, 5469, 5470, 5471, 5472, 5473, 
    5474, 5475, 5476, 5477, 5478
  ) 
  AND cscart_product_prices.lower_limit = 1 
  AND cscart_product_prices.usergroup_id IN (0, 1) 
GROUP BY 
  cscart_product_prices.product_id

Query time 0.00081

JSON explain

{
  "query_block": {
    "select_id": 1,
    "cost_info": {
      "query_cost": "16.81"
    },
    "grouping_operation": {
      "using_filesort": false,
      "table": {
        "table_name": "cscart_product_prices",
        "access_type": "range",
        "possible_keys": [
          "usergroup",
          "product_id",
          "lower_limit",
          "usergroup_id"
        ],
        "key": "product_id",
        "used_key_parts": [
          "product_id"
        ],
        "key_length": "3",
        "rows_examined_per_scan": 24,
        "rows_produced_per_join": 4,
        "filtered": "20.00",
        "index_condition": "(`gaseus`.`cscart_product_prices`.`product_id` in (1818,1819,3744,3745,3746,3747,5461,5462,5463,5464,5465,5466,5467,5468,5469,5470,5471,5472,5473,5474,5475,5476,5477,5478))",
        "cost_info": {
          "read_cost": "16.33",
          "eval_cost": "0.48",
          "prefix_cost": "16.81",
          "data_read_per_join": "115"
        },
        "used_columns": [
          "product_id",
          "price",
          "percentage_discount",
          "lower_limit",
          "usergroup_id"
        ],
        "attached_condition": "((`gaseus`.`cscart_product_prices`.`lower_limit` = 1) and (`gaseus`.`cscart_product_prices`.`usergroup_id` in (0,1)))"
      }
    }
  }
}

Result

product_id price
1818 0.00000000
1819 0.00000000
3744 0.00000000
3745 0.00000000
3746 0.00000000
3747 0.00000000
5461 0.00000000
5462 0.00000000
5463 0.00000000
5464 0.00000000
5465 0.00000000
5466 0.00000000
5467 0.00000000
5468 0.00000000
5469 0.00000000
5470 0.00000000
5471 0.00000000
5472 0.00000000
5473 0.00000000
5474 0.00000000
5475 0.00000000
5476 0.00000000
5477 0.00000000
5478 0.00000000