Things may be different in other countries, but here in the GWN, freight and PDI are included in the MSRP.
Doesn't stop dealers from trying to add it on though.
So if you see MSRP plus freight and PDI on the sticker the dealer is just adding that for more margin (at least here in Canada). Note the printing in the balloon. Freight and PDI are already included. This is from Honda's website
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It may be different in the US. ie. the freight and pdi may not be included in the msrp but interesting, freight is set by the manufacturer and is the same, regardless of location of the dealer, So if the dealer is jacking the freight up, over the set amount, that should not happen.
Car price quotes may seem confusing at first, but once you figure them out, they are not so complicated. Find out how to decipher them and avoid being overcharged.
I just wish that all the "games" wouldn't be played. Have a price and that is the price OTD. No BS. However, as much as the dealers are at fault for playing the games, customers are as well. Many want to feel that they are great "deal makers" so will do all the bargaining anyway.
Personally, I have a price that I will pay for something. I ask the vendor what their price is OTD and if it is what I am willing to pay, or very close, I will buy. If it is not, I thank them for their time and leave. Life is too short for the games. Majority of times they will contact me and try again but if it is still not the price, I again thank them (no use being snotty as you may need them down the road) but decline their offer. When/if (many times they do) they call with a number I like, I will make the deal but I don't bargain. Simple yes or no. Saves a lot of time.
Biggest thing is to know the market value of what you are buying and what you are trading.
In the OP's case, freight should not be on the invoice as a line item.