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google the codes you have posted here
codes P0303 and P0302 lexus 300
these are cylinder misfire codes. There is a procedure for this but I would suggest you rad that and follow directions before going the compression test route. The other thing you said was that all this started when you ran out of fuel. Could be you burned out the fuel pump or the pump sucked the junk up off the bottom of the tank and is now plugged up. So many choices but if it was me, I would start with the fuel pump before I started tearing into the motor.
Your codes indicate misfires. What was done in the "tune up"? Misfires can be caused by any of several different causes including (but not limited to):
spark plug wires
The term "tune up" used to mean, "replace points, condenser, distributor cap and rotor, and plugs". Since most cars no longer have points, condenser, distributor cap and rotor, we need to ask what was done...
What engine size ? Did you check for vacuum leaks at the intake manifold . How many mile's on the engine ? Oil in cylinders ? weak piston rings , what kind of compression reading's ? Do .compression testing .Have it hooked up to a factory or professional scan tool to check engine sensor data . Unless you like just replacing parts and making part stores rich . Your vehicle also has electronic fuel control , fuel pump driver module ! There is a fuel pressure sensor on the fuel injector fuel rail ! Tell's the PCM how much pressure ! 39 psi is good engine off or idling .
Fuel Pump Driver Module Applications
The fuel pump driver module (FPDM) communicates diagnostic information to the powertrain control module (PCM) through the Fuel Pump Monitor (FPM) circuit. This information is sent by the FPDM as a duty cycle signal. The three duty cycle signals that may be sent are listed in the following table.
code po303 refers to cylinder 3--misfire detected===causes --engine mechanical fault---wiring---ignition/ fuel system---injector---ECT/MAF sensor---ECM. check plug and HT lead to no 3 cylinder. Check that the injector to 3 cylinder is operational and not blocking or squirting. Have a compression test done to check for compression / gasket problems
The minimum compression required is 95 psi, below this there is no good combustion, incusive the spark plug gets wet in gasoline
If this condition exists, you should check the piston rings and cylinder surface
well a compression test will tell you if the engines internal components are working properly and it is critical you start there when having a problem like this.
testing the injectors will let you know if they are giving fuel to the engine. there are two test for the injector and first one you do is an electrical test to see if they are getting turned on and off as they are supposed to and it they are internaly good electricaly with is done by listening to them with a stethoscope to see if you here the clicking sound the pintle valve makes inside of them. then there is the test to see if there spraying fuel or leaking fuel witch is called a leak down test and is done with a fuel pressure guage and a tester that will electrical turn the individual ijector on to see how much pressure it drops.
this is what i would do if i had it in my shop.
let me know if you have any more question and that you understood what i described.