Remove the extra spacing at the bottom of every item row

The extra spacing is a result of an empty table row (reserved for custom options) under

app/design/frontend/base/default/template/fooman/pdfcustomiser/item.phtml

You can remove it by deleting

<?php if (
    $pdfItem['productDetails']['Options']
    || $pdfItem['giftMessage']['message']
    || $pdfItem['productDetails']['Subitems']
) : ?>
    </tr>
    <tr nobr="true">
    <td style="<?php echo ($styleOverride ? $styleOverride['style_last'] : $column['style_last']) ?>
        " colspan="<?php echo  $maxColumns ?>" width="100%">
        <?php $options = $pdfItem['productDetails']['Options'] ?>           
        <?php if ($options) : ?>
            <?php if (isset($options['options'])) : ?>
                <?php foreach ($options['options'] as $option) : ?>
                    <?php if ($option['label'] == 'Detail') : ?>
                        <?php foreach (explode("\n", $option['value']) as $detailLines) : ?>
                            <?php echo '<br/>  ' . $this->getPdfHelper()->fixEncoding($detailLines) ?>
                        <?php endforeach; ?>
                    <?php else : ?>
                        <?php //Aitoc Custom Product Options adds a whole bunch of JS ?>    
                        <?php //filter it out here ?>           
                        <?php if (strpos($option['value'], 'Aitcg.Main') === false) : ?>       
                            <?php $printValue = isset($option['print_value']) ? $option['print_value'] : $option['value'] ?>
                            <?php echo '<br/>  ' . $this->getPdfHelper()->fixEncoding($option['label'] . ': ' . $printValue) ?>
                        <?php endif; ?>
                    <?php endif; ?>
                <?php endforeach; ?>   
                <?php echo '<br/>' ?>
            <?php endif; ?>
            <?php if (isset($options['additional_options'])) : ?>
                <?php foreach ($options['additional_options'] as $additionalOption) : ?>
                    <?php echo '<br/>  ' . $this->getPdfHelper()->fixEncoding(
                                $additionalOption['label'] . ': ' . $additionalOption['value']) ?>
                <?php endforeach; ?>       
                <?php //echo '<br/>' ?> 
            <?php endif; ?>
            <?php if (isset($options['attributes_info'])) : ?>
                <?php foreach ($options['attributes_info'] as $attribute) : ?>
                    <?php echo '<br/>  ' . $this->getPdfHelper()->fixEncoding(
                                $attribute['label'] . ': ' . $attribute['value']) ?>
                <?php endforeach; ?> 
            <?php endif; ?>
        <?php endif; ?>
        <?php if(!empty($pdfItem['productDetails']['Subitems'])):?>
            <?php foreach ($pdfItem['productDetails']['Subitems'] as $subitem) :?>
                <br/>    <?php echo $subitem['qty']?> x <?php echo $subitem['Name']?>
            <?php endforeach;?>
        <?php endif;?>
        <?php echo $this->getPdfHelper()->OutputGiftMessageItem($pdfItem['giftMessage']) . $vertSpacing ?>
    </td>
<?php endif; ?>

If you want to display the product options, subitems or gift message, please transfer the codes to one of the active columns you can find within the file.