Batch automate resize and watermark not saving

I see two solutions for your problem.

Solution A:

Check Override Action Save As Commands in Batch dialogue and use actions with Save step.

Solution B:

Excludde Export and Save step from action without checking Override Actions Save As Commands.

I do not see Export step and what is recorded (probably Save for Web) but in any case you must untick or exclude that step by clicking on the left side of step to dissapear checkmark as shown on screenshot below.

From my testing everything works fine. I am assuming you do not have Save As step in your action. Can you please take screenshot of your action steps and post it here?

One more thing, on your screenshot I see that drive G is selected as source folder, is that what you want or mistake in screenshot? 

I am using latest Photoshop 21.2.2 on Windows 10 while testing.

You would need to post the action.  Actions can not deal with document size well and have limited saving capability.  You are usually better off Batching you actions with a Batch processor like menu File>Automate>Batch.., Menu File>Scripts>Image Processor... and have the Batch processor save the output files.  As for resizing Watermaks for different size images  actions will have a problems  doing the resize. There are no Action conditional step for testing document sizes.   You actually would need a Photoshop script to handle sizing well.

 I have post a script to watermark Images with your watermark.  The  script has variable that are easy to modify to use your Watermark file and you size and location settings.  

My Personal settings

var logoFile = "~/Desktop/JJMack.png";  // Watermark file should be large for resize down works better than up
var LogoSize = 10;                                    // percent of document height to resize Watermark to
var LogoMargin = 1;                                 // percent of Document height the Watermark should have as a margin
var BottomLetf = false;                             // false = Bottom Right true Bottom Left

The PlaceWatermark.jsx Script file

/* ==========================================================
// 2017  John J. McAssey (JJMack) 
// ======================================================= */
// This script is supplied as is. It is provided as freeware. 
// The author accepts no liability for any problems arising from its use.
/*
<javascriptresource>
<about>$$$/JavaScripts/PlaceWatermark/About=JJMack's PlaceWatermark ^r^rCopyright 2017 Mouseprints.net^r^rPhotoshop Script^rCustomize using first four var</about>
<category>JJMack's Script</category>
<enableinfo>true</enableinfo>
</javascriptresource>
*/
#target photoshop;  
app.bringToFront();  
var logoFile = "~/Desktop/JJMack.png";						// Watermark file should be large for resize down works better than up
var LogoSize = 10;											// percent of document height to resize Watermark to
var LogoMargin = 1;                                         // percent of Document height the Watermark should have as a margin
var BottomLetf = false;										// false = Bottom Right true Bottom Left 
//placeWatermark(logoFile, LogoSize, LogoMargin);           // Place Watermark into the bottom of the document
if (documents.length) app.activeDocument.suspendHistory('placeWatermark','placeWatermark(logoFile,LogoSize,LogoMargin)' );
///////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////
function placeWatermark(Image,Size,Margin){  
	if(!documents.length) return;  							// if no document return
		var fileObj = new File(Image);	                	// the passed file
	if(!fileObj.exists){  									// If file does not exits tell user 
		alert(fileObj.name  + " does not exist!"); 			// Alert User 
		return;  											// return
		}  
	try{  
		var doc = app.activeDocument;						// set Doc object to active document
		app.displayDialogs = DialogModes.NO;				// Dialog off 
		var strtRulerUnits = app.preferences.rulerUnits;	// Save Users ruler units 
		var strtTypeUnits = app.preferences.typeUnits;		// Save Users Type units 
		app.preferences.rulerUnits = Units.PIXELS;			// work with pixels 
		app.preferences.typeUnits = TypeUnits.PIXELS;		// work with pixels 
		var layers = app.activeDocument.layers;				// get layers
		app.activeDocument.activeLayer = layers[0];			// Target Top Layer
		placeFile(fileObj); 								// Place in file the Watermark png file
		activeDocument.activeLayer.resize(100 ,100,AnchorPosition.MIDDLECENTER); // Insure Place did not scale layer  
		var SB = activeDocument.activeLayer.bounds; 		// get layers bounds 
		var layerHeight = SB[3] - SB[1];					// get layers height  
		var resizePercent = (100/layerHeight)*(Size/100*doc.height.value); // Percent to resize by 
		activeDocument.activeLayer.resize(resizePercent ,resizePercent,AnchorPosition.MIDDLECENTER);  // Resize width and height by percentage 
		SB = activeDocument.activeLayer.bounds;				// get resized layers bounds  
		activeDocument.activeLayer.translate(-SB[0].value,-SB[1].value); // Move resized layer to top left canvas corner 
		var LayerWidth = (SB[2].value - SB[0].value);		// get resized layers width  
		var LayerHeight = (SB[3].value - SB[1].value);  	// get resized layers height
		marginSize = Margin/100*doc.height.value;			// Margin size
		// move resized watermark into the document lower right corner with some margin or lower left
		if  ( BottomLetf) {activeDocument.activeLayer.translate(marginSize,( doc.height.value -marginSize - LayerHeight));}
		else {activeDocument.activeLayer.translate((doc.width.value -marginSize - LayerWidth),( doc.height.value -marginSize - LayerHeight));}
	}
	catch(e) { alert(e + ': on line ' + e.line); }			// inform user of error  
	finally{  
		app.preferences.rulerUnits = strtRulerUnits;		// Restore user ruler units  
		app.preferences.typeUnits = strtTypeUnits;			// Restore user type units    
	};  
}; 
//////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////// 
function placeFile(placeFile) {  
    var desc21 = new ActionDescriptor();  
    desc21.putPath( charIDToTypeID('null'), new File(placeFile) );  
    desc21.putEnumerated( charIDToTypeID('FTcs'), charIDToTypeID('QCSt'), charIDToTypeID('Qcsa') );  
    var desc22 = new ActionDescriptor();  
    desc22.putUnitDouble( charIDToTypeID('Hrzn'), charIDToTypeID('#Pxl'), 0.000000 );  
    desc22.putUnitDouble( charIDToTypeID('Vrtc'), charIDToTypeID('#Pxl'), 0.000000 );  
    desc21.putObject( charIDToTypeID('Ofst'), charIDToTypeID('Ofst'), desc22 );  
    executeAction( charIDToTypeID('Plc '), desc21, DialogModes.NO );  
};  

Hi i think you are not choosing input or output folder settings in a correct way....regards